UNITED STATES
SECURITIES AND EXCHANGE COMMISSION
Washington, D.C. 20549
FORM 10-Q
Quarterly Report Pursuant to Section 13 or 15(d) of the Securities Exchange Act of 1934
For the Quarterly Period Ended June 30, 2019March 29, 2020
Transition Report Pursuant to Section 13 or 15(d) of the Securities Exchange Act of 1934
For the transition period from             to            
Commission File Number 001-35406 
ilmnlogoa191.jpg
Illumina, Inc.
(Exact name of registrant as specified in its charter)
Delaware 33-0804655
(State or other jurisdiction of
incorporation or organization)
 
(I.R.S. Employer
Identification No.)

5200 Illumina Way, San Diego, CA 92122
(Address of principal executive offices) (Zip code)
(858) 202-4500
(Registrant’s telephone number, including area code)
N/A
(Former name, former address and former fiscal year, if changed since last report)

Securities registered pursuant to Section 12(b) of the Act:
Title of each classTrading Symbol(s)Name of each exchange on which registered
Common Stock, $0.01 par valueILMNThe NASDAQ Global Select Market
Indicate by check mark whether the registrant (1) has filed all reports required to be filed by Section 13 or 15(d) of the Securities Exchange Act of 1934 during the preceding 12 months (or for such shorter period that the registrant was required to file such reports), and (2) has been subject to such filing requirements for the past 90 days.    Yes       No  
Indicate by check mark whether the registrant has submitted electronically every Interactive Data File required to be submitted pursuant to Rule 405 of Regulation S-T during the preceding 12 months (or for such shorter period that the registrant was required to submit such files).    Yes       No  
Indicate by check mark whether the registrant is a large accelerated filer, an accelerated filer, a non-accelerated filer, smaller reporting company, or an emerging growth company. See the definitions of “large accelerated filer,” “accelerated filer,” “smaller reporting company,” and “emerging growth company” in Rule 12b-2 of the Exchange Act.
Large accelerated filerþAccelerated filer
Non-accelerated filerSmaller reporting companyEmerging growth company
    (Do not check if a smaller reporting company)
   Emerging growth company
If an emerging growth company, indicate by check mark if the registrant has elected not to use the extended transition period for complying with any new or revised financial accounting standards provided pursuant to Section 13a of the Exchange Act.     
Indicate by check mark whether the registrant is a shell company (as defined in Rule 12b-2 of the Exchange Act).     Yes      No   þ

As of July 26, 2019,April 24, 2020, there were 147 million shares of the registrant’s common stock outstanding.





ILLUMINA, INC.
INDEXFORM 10-Q
FOR THE FISCAL QUARTER ENDED MARCH 29, 2020
TABLE OF CONTENTS


See “Form 10-Q Cross-Reference Index” within Other Key Information for a cross-reference to the parts and items requirements of the Securities and Exchange Commission Quarterly Report on Form 10-Q.
CONDENSED CONSOLIDATED FINANCIAL STATEMENTSPage
PAGE
MANAGEMENT’S DISCUSSION & ANALYSIS
OTHER KEY INFORMATION



PART I. FINANCIAL INFORMATION
2

Item 1. Financial Statements.


Consideration Regarding Forward-Looking Statements

This Quarterly Report on Form 10-Q contains, and our officers and representatives may from time to time make, “forward-looking statements” within the meaning of the safe harbor provisions of the U.S. Private Securities Litigation Reform Act of 1995.  Forward-looking statements can be identified by words such as: “anticipate,” “intend,” “plan,” “goal,” “seek,” “believe,” “continue,” “project,” “estimate,” “expect,” “strategy,” “future,” “likely,” “may,” “potential,” “predict,” should,” “will,” or similar words or phrases, or the negatives of these words, may identify forward-looking statements, but the absence of these words does not necessarily mean that a statement is not forward looking.  Examples of forward-looking statements include, among others, statements we make regarding:
our expectations as to our future financial performance, results of operations, or other operational results or metrics;
our expectations regarding the launch of new products or services;
the benefits that we expect will result from our business activities and certain transactions we have completed, such as product introductions, increased revenue, decreased expenses, and avoided expenses and expenditures;
our expectations of the effect on our financial condition of claims, litigation, contingent liabilities, and governmental investigations, proceedings, and regulations;
our strategies or expectations for product development, market position, financial results, and reserves;
our expectations regarding the integration of any acquired technologies with our existing technology; and
other expectations, beliefs, plans, strategies, anticipated developments, and other matters that are not historical facts.

Forward-looking statements are neither historical facts nor assurances of future performance.  Instead, they are based only on our current beliefs, expectations, and assumptions regarding the future of our business, future plans and strategies, projections, anticipated events and trends, the economy, and other future conditions.  Because forward-looking statements relate to the future, they are subject to inherent uncertainties, risks, and changes in circumstances that are difficult to predict and many of which are outside of our control.  Our actual results and financial condition may differ materially from those indicated in the forward-looking statements.  Therefore, you should not rely on any of these forward-looking statements.  Important factors that could cause our actual results and financial condition to differ materially from those indicated in the forward-looking statements include, among others, the following:
the impact to our business and operating results caused by the COVID-19 pandemic;
our expectations and beliefs regarding prospects and growth for our business and the markets in which we operate;
the timing and mix of customer orders among our products and services;
challenges inherent in developing, manufacturing, and launching new products and services, including expanding manufacturing operations and reliance on third-party suppliers for critical components;
the impact of recently launched or pre-announced products and services on existing products and services;
our ability to develop and commercialize our instruments and consumables, to deploy new products, services, and applications, and to expand the markets for our technology platforms;
our ability to manufacture robust instrumentation and consumables;
our ability to identify and integrate acquired technologies, products, or businesses successfully;
the assumptions underlying our critical accounting policies and estimates;
our assessments and estimates that determine our effective tax rate;
our assessments and beliefs regarding the outcome of pending legal proceedings and any liability, that we may incur as a result of those proceedings;
uncertainty, or adverse economic and business conditions, including as a result of slowing or uncertain economic growth in the United States or worldwide; and

3




other factors detailed in our filings with the SEC, including the risks, uncertainties, and assumptions described in “Risk Factors” within the Business and Market Information section of our Annual Report on Form 10-K for the fiscal year ended December 29, 2019, or in information disclosed in public conference calls, the date and time of which are released beforehand.

The foregoing factors should be considered together with other factors detailed in our filings with the Securities and Exchange Commission, including our most recent filings on Forms 10-K and 10-Q, or in information disclosed in public conference calls, the date and time of which are released beforehand.  We undertake no obligation, and do not intend, to publicly update any forward-looking statement, whether written or oral, that may be made from time to time, or to review or confirm analysts’ expectations, or to provide interim reports or updates on the progress of any current financial quarter, in each case whether as a result of new information, future developments, or otherwise.

4



CONDENSED CONSOLIDATED FINANCIAL STATEMENTS

ILLUMINA, INC.
CONDENSED CONSOLIDATED BALANCE SHEETS
(In millions)
 
June 30,
2019
 December 30,
2018
March 29,
2020
 December 29,
2019
(Unaudited)  (Unaudited)  
ASSETS
Current assets:      
Cash and cash equivalents$1,943
 $1,144
$1,991
 $2,042
Short-term investments1,230
 2,368
1,341
 1,372
Accounts receivable, net470
 514
472
 573
Inventory420
 386
384
 359
Prepaid expenses and other current assets93
 78
136
 105
Total current assets4,156
 4,490
4,324
 4,451
Property and equipment, net854
 1,075
890
 889
Operating lease right-of-use assets558
 
559
 555
Goodwill824
 831
824
 824
Intangible assets, net162
 185
138
 145
Deferred tax assets, net69
 70
91
 64
Other assets350
 308
435
 388
Total assets$6,973
 $6,959
$7,261
 $7,316
      
LIABILITIES AND STOCKHOLDERS’ EQUITY
Current liabilities:      
Accounts payable$139
 $184
$130
 $149
Accrued liabilities473
 513
425
 516
Long-term debt, current portion
 1,107
499
 
Total current liabilities612
 1,804
1,054
 665
Operating lease liabilities698
 
696
 695
Long-term debt1,120
 890
652
 1,141
Other long-term liabilities211
 359
224
 202
Redeemable noncontrolling interests
 61
Stockholders’ equity:      
Common stock2
 2
2
 2
Additional paid-in capital3,436
 3,290
3,631
 3,560
Accumulated other comprehensive income (loss)5
 (1)
Accumulated other comprehensive income6
 5
Retained earnings3,594
 3,083
4,240
 4,067
Treasury stock, at cost(2,705) (2,616)(3,244) (3,021)
Total Illumina stockholders’ equity4,332
 3,758
Noncontrolling interests
 87
Total stockholders’ equity4,332
 3,845
4,635
 4,613
Total liabilities and stockholders’ equity$6,973
 $6,959
$7,261
 $7,316
See accompanying notes to condensed consolidated financial statements.



5

Table of Contents


ILLUMINA, INC.
CONDENSED CONSOLIDATED STATEMENTS OF INCOME
(Unaudited)
(In millions, except per share amounts)
 
Three Months Ended Six Months EndedThree Months Ended
June 30,
2019
 July 1,
2018
 June 30,
2019
 July 1,
2018
March 29,
2020
 March 31,
2019
Revenue:          
Product revenue$704
 $673
 $1,372
 $1,301
$701
 $667
Service and other revenue134
 157
 312
 311
158
 179
Total revenue838
 830
 1,684
 1,612
859
 846
Cost of revenue:          
Cost of product revenue196
 181
 378
 355
174
 182
Cost of service and other revenue59
 65
 130
 127
59
 71
Amortization of acquired intangible assets10
 9
 19
 17
7
 9
Total cost of revenue265
 255
 527
 499
240
 262
Gross profit573
 575
 1,157
 1,113
619
 584
Operating expense:          
Research and development166
 151
 335
 288
156
 169
Selling, general and administrative202
 197
 412
 380
274
 211
Total operating expense368
 348
 747
 668
430
 380
Income from operations205
 227
 410
 445
189
 204
Other income (expense):          
Interest income20
 11
 43
 16
14
 23
Interest expense(15) (11) (30) (22)(11) (15)
Other income, net136
 5
 157
 14
Total other income, net141
 5
 170
 8
Other (expense) income, net(14) 21
Total other (expense) income, net(11) 29
Income before income taxes346
 232
 580
 453
178
 233
Provision for income taxes53
 32
 63
 56
5
 9
Consolidated net income293
 200
 517
 397
173
 224
Add: Net loss attributable to noncontrolling interests3
 9
 12
 20

 9
Net income attributable to Illumina stockholders$296
 $209
 $529
 $417
$173
 $233
Earnings per share attributable to Illumina stockholders:          
Basic$2.01
 $1.42
 $3.60
 $2.84
$1.18
 $1.58
Diluted$1.99
 $1.41
 $3.56
 $2.82
$1.17
 $1.57
Shares used in computing earnings per share:          
Basic147
 147
 147
 147
147
 147
Diluted149
 148
 149
 148
148
 149
See accompanying notes to condensed consolidated financial statements.



6

Table of Contents


ILLUMINA, INC.
CONDENSED CONSOLIDATED STATEMENTS OF COMPREHENSIVE INCOME
(Unaudited)
(In millions)
 
Three Months Ended Six Months EndedThree Months Ended
June 30,
2019
 July 1,
2018
 June 30,
2019
 July 1,
2018
March 29,
2020
 March 31,
2019
Consolidated net income$293
 $200
 $517
 $397
$173
 $224
Unrealized gain on available-for-sale debt securities, net of deferred tax3
 
 6
 
1
 3
Total consolidated comprehensive income296
 200
 523
 397
174
 227
Add: Comprehensive loss attributable to noncontrolling interests3
 9
 12
 20

 9
Comprehensive income attributable to Illumina stockholders$299
 $209
 $535
 $417
$174
 $236
See accompanying notes to condensed consolidated financial statements.



7

Table of Contents


ILLUMINA, INC.
CONDENSED CONSOLIDATED STATEMENTS OF STOCKHOLDERS’ EQUITY
(Unaudited)
(In millions)
 Illumina Stockholders    
     Additional Accumulated Other         Total
 Common Stock Paid-In Comprehensive Retained Treasury Stock Noncontrolling Stockholders’
 Shares Amount Capital (Loss) Income Earnings Shares Amount Interests Equity
Balance as of December 31, 2017191
 $2
 $2,833
 $(1) $2,256
 (44) $(2,341) $
 $2,749
Net income (loss)
 
 
 
 208
 
 
 (1) 207
Issuance of common stock, net of repurchases
 
 21
 
 
 
 (13) 
 8
Share-based compensation
 
 48
 
 
 
 
 
 48
Adjustment to the carrying value of redeemable noncontrolling interests
 
 (5) 
 
 
 
 
 (5)
Contributions from noncontrolling interest owners
 
 
 
 
 
 
 61
 61
Issuance of subsidiary shares in business combination
 
 
 
 
 
 
 5
 5
Balance as of April 1, 2018191
 2
 2,897
 (1) 2,464
 (44) (2,354) 65
 3,073
Net income (loss)
 
 
 
 209
 
 
 (2) 207
Issuance of common stock, net of repurchases
 
 1
 
 
 
 (2) 
 (1)
Share-based compensation
 
 50
 
 
 
 
 
 50
Vesting of redeemable equity awards
 
 (1) 
 
 
 
 
 (1)
Adjustment to the carrying value of redeemable noncontrolling interests
 
 (8) 
 
 
 
 
 (8)
Contributions from noncontrolling interest owners
 
 
 
 
 
 
 31
 31
Balance as of July 1, 2018191
 2
 2,939
 (1) 2,673
 (44) (2,356) 94
 3,351
Net income (loss)
 
 
 
 199
 
 
 (3) 196
Unrealized loss on available-for-sale debt securities, net of deferred tax
 
 
 (1) 
 
 
 
 (1)
Issuance of common stock, net of repurchases
 
 23
 
 
 
 (106) 
 (83)
Share-based compensation
 
 47
 
 
 
 
 
 47
Vesting of redeemable equity awards
 
 (1) 
 
 
 
 
 (1)
Adjustment to the carrying value of redeemable noncontrolling interests
 
 (8) 
 
 
 
 
 (8)
Issuance of convertible senior notes, net of tax impact
 
 93
 
 
 
 
 
 93
Balance as of September 30, 2018191
 2
 3,093
 (2) 2,872
 (44) (2,462) 91
 3,594
Net income (loss)
 
 
 
 210
 
 
 (4) 206
Unrealized gain on available-for-sale debt securities, net of deferred tax
 
 
 1
 
 
 
 
 1
Issuance of common stock, net of repurchases1
 
 1
 
 
 (1) (154) 
 (153)
Share-based compensation
 
 48
 
 
 
 
 
 48
Adjustment to the carrying value of redeemable noncontrolling interests
 
 148
 
 
 
 
 
 148

Cumulative-effect adjustment from adoption of ASU 2016-01
 
 
 
 1
 
 
 
 1
Illumina Stockholders    
    Additional Accumulated Other         Total
Common Stock Paid-In Comprehensive Retained Treasury Stock Noncontrolling Stockholders’
Shares Amount Capital (Loss) Income Earnings Shares Amount Interests Equity
Balance as of December 30, 2018192
 2
 3,290
 (1) 3,083
 (45) (2,616) 87
 3,845
192
 $2
 $3,290
 $(1) $3,083
 (45) $(2,616) $87
 $3,845
Net income (loss)
 
 
 
 233
 
 
 (2) 231

 
 
 
 233
 
 
 (2) 231
Unrealized gain on available-for-sale debt securities, net of deferred tax
 
 
 3
 
 
 
 
 3

 
 
 3
 
 
 
 
 3
Issuance of common stock, net of repurchases
 
 27
 
 
 
 (86) 
 (59)
 
 27
 
 
 
 (86) 
 (59)
Share-based compensation
 
 51
 
 
 
 
 
 51

 
 51
 
 
 
 
 
 51
Cumulative-effect adjustment from adoption of ASU 2016-02, net of deferred tax
 
 
 
 (18) 
 
 
 (18)
Vesting of redeemable equity awards
 
 (1) 
 
 
 
 
 (1)
 
 (1) 
 
 
 
 
 (1)
Adjustment to the carrying value of redeemable noncontrolling interests
 
 18
 
 
 
 
 
 18

 
 18
 
 
 
 
 
 18
Cumulative-effect adjustment from adoption of ASU 2016-02, net of deferred tax
 
 
 
 (18) 
 
 
 (18)
Balance as of March 31, 2019192
 2
 3,385
 2
 3,298
 (45) (2,702) 85
 4,070
192
 2
 3,385
 2
 3,298
 (45) (2,702) 85
 4,070
Net income (loss)
 
 
 
 296
 
 
 (1) 295

 
 
 
 296
 
 
 (1) 295
Unrealized gain on available-for-sale debt securities, net of deferred tax
 
 
 3
 
 
 
 
 3

 
 
 3
 
 
 
 
 3
Issuance of common stock, net of repurchases1
 
 3
 
 
 
 (3) 
 
1
 
 3
 
 
 
 (3) 
 
Share-based compensation
 
 48
 
 
 
 
 
 48

 
 48
 
 
 
 
 
 48
Adjustment to the carrying value of redeemable noncontrolling interests
 
 (2) 
 
 
 
 
 (2)
 
 (2) 
 
 
 
 
 (2)
Deconsolidation of Helix
 
 2
 
 
 
 
 (84) (82)
 
 2
 
 
 
 
 (84) (82)
Balance as of June 30, 2019193
 $2
 $3,436
 $5
 $3,594
 (45) $(2,705) $
 $4,332
193
 2
 3,436
 5
 3,594
 (45) (2,705) 
 4,332
Net income
 
 
 
 234
 
 
 
 234
Issuance of common stock, net of repurchases
 
 29
 
 
 (1) (201) 
 (172)
Share-based compensation
 
 45
 
 
 
 
 
 45
Balance as of September 29, 2019193
 2
 3,510
 5
 3,828
 (46) (2,906) 
 4,439
Net income
 
 
 
 239
 
 
 
 239
Issuance of common stock, net of repurchases1
 
 
 
 
 (1) (115) 
 (115)
Share-based compensation
 
 50
 
 
 
 
 
 50
Balance as of December 29, 2019194
 2
 3,560
 5
 4,067
 (47) (3,021) 
 4,613
Net income
 
 
 
 173
 
 
 
 173
Unrealized gain on available-for-sale debt securities, net of deferred tax
 
 
 1
 
 
 
 
 1
Issuance of common stock, net of repurchases
 
 32
 
 
 
 (223) 
 (191)
Share-based compensation
 
 39
 
 
 
 
 
 39
Balance as of March 29, 2020194
 $2
 $3,631
 $6
 $4,240
 (47) $(3,244) $
 $4,635

See accompanying notes to condensed consolidated financial statements.


8

Table of Contents


ILLUMINA, INC.
CONDENSED CONSOLIDATED STATEMENTS OF CASH FLOWS
(Unaudited)
(In millions)
 Six Months Ended
 June 30,
2019
 July 1,
2018
Cash flows from operating activities:   
Consolidated net income$517
 $397
Adjustments to reconcile net income to net cash provided by operating activities:   
Depreciation expense76
 65
Amortization of intangible assets20
 19
Share-based compensation expense99
 98
Accretion of debt discount27
 16
Deferred income taxes6
 (22)
Unrealized gains on marketable equity securities(104) 
Payment of accreted debt discount(84) 
Gains on deconsolidation(54) 
Other(5) (6)
Changes in operating assets and liabilities:   
Accounts receivable46
 12
Inventory(36) (28)
Prepaid expenses and other current assets(11) 1
Operating lease right-of-use assets and liabilities, net(3) 
Other assets(11) (5)
Accounts payable(43) 1
Accrued liabilities(87) 17
Other long-term liabilities(12) (15)
Net cash provided by operating activities341
 550
Cash flows from investing activities:   
Maturities of available-for-sale securities1,204
 556
Purchases of available-for-sale securities(393) (1,137)
Sales of available-for-sale securities386
 332
Purchases of property and equipment(103) (167)
Deconsolidation of Helix cash(29) 
Proceeds from deconsolidation of GRAIL15
 
Net purchases of strategic investments(13) (9)
Net cash paid for acquisitions
 (100)
Net cash provided by (used in) investing activities1,067
 (525)
Cash flows from financing activities:   
Payments on financing obligations(550) (2)
Common stock repurchases(63) 
Taxes paid related to net share settlement of equity awards(26) (15)
Proceeds from issuance of common stock30
 22
Contributions from noncontrolling interest owners
 92
Net cash (used in) provided by financing activities(609) 97
Effect of exchange rate changes on cash and cash equivalents
 (3)
Net increase in cash and cash equivalents799
 119
Cash and cash equivalents at beginning of period1,144
 1,225
Cash and cash equivalents at end of period$1,943
 $1,344
Supplemental cash flow information:   
Cash paid for operating lease liabilities$42
 $

 Three Months Ended
 March 29,
2020
 March 31,
2019
Cash flows from operating activities:   
Consolidated net income$173
 $224
Adjustments to reconcile net income to net cash provided by operating activities:   
Depreciation expense37
 37
Amortization of intangible assets7
 10
Share-based compensation expense39
 51
Accretion of debt discount10
 14
Deferred income taxes(29) (11)
Unrealized gains on marketable equity securities(3) (2)
Gain on deconsolidation of GRAIL
 (15)
Loss on derivative assets related to terminated acquisition95
 
Other(2) (3)
Changes in operating assets and liabilities:   
Accounts receivable99
 56
Inventory(24) (26)
Prepaid expenses and other current assets(14) 6
Operating lease right-of-use assets and liabilities, net(1) (1)
Other assets(11) (8)
Accounts payable(16) (47)
Accrued liabilities(103) (70)
Other long-term liabilities24
 (17)
Net cash provided by operating activities281
 198
Cash flows from investing activities:   
Maturities of available-for-sale securities107
 1,031
Purchases of available-for-sale securities(256) (117)
Sales of available-for-sale securities186
 118
Proceeds from the deconsolidation of GRAIL
 15
Cash paid for derivative assets related to terminated acquisition(132) 
Purchases of property and equipment(40) (56)
Net purchases of strategic investments
 (3)
Net cash (used in) provided by investing activities(135) 988
Cash flows from financing activities:   
Payments on financing obligations
 (1)
Common stock repurchases(188) (63)
Taxes paid related to net share settlement of equity awards(35) (23)
Proceeds from issuance of common stock32
 27
Net cash used in financing activities(191) (60)
Effect of exchange rate changes on cash and cash equivalents(6) 
Net (decrease) increase in cash and cash equivalents(51) 1,126
Cash and cash equivalents at beginning of period2,042
 1,144
Cash and cash equivalents at end of period$1,991
 $2,270
See accompanying notes to condensed consolidated financial statements.


Illumina, Inc.
9

Notes to Condensed Consolidated Financial Statements
Table of Contents
(Unaudited)

ILLUMINA, INC.
NOTES TO CONDENSED CONSOLIDATED FINANCIAL STATEMENTS
(UNAUDITED)
Unless the context requires otherwise, references in this report toIllumina,” “we,” “us,” the “Company,” and “our” refer to Illumina, Inc. and its consolidated subsidiaries.

1. Basis of Presentation and Summary of Significant Accounting Policies
1. ORGANIZATION AND SIGNIFICANT ACCOUNTING POLICIES


Business Overview

We are a provider of sequencing- and array-based solutions, serving customers in the research, clinical and applied markets.  Our products are used for applications in the life sciences, oncology, reproductive health, agriculture and other emerging segments. Our customers include leading genomic research centers, academic institutions, government laboratories, and hospitals, as well as pharmaceutical, biotechnology, commercial molecular diagnostic laboratories, and consumer genomics companies.

Basis of Presentation

The accompanying unaudited condensed consolidated financial statements have been prepared in accordance with U.S. generally accepted accounting principles (GAAP) for interim financial information and the instructions to Form 10-Q and Article 10 of Regulation S-X. Accordingly, they do not include all of the information and footnotes required by GAAP for complete financial statements. Interim financial results are not necessarily indicative of results anticipated for the full year. These unaudited condensed consolidated financial statements should be read in conjunction with the audited consolidated financial statements and footnotes included in the Annual Report on Form 10-K for the fiscal year ended December 30, 2018,29, 2019, from which the prior year balance sheet information herein was derived. The preparation of financial statements requires management to make estimates and assumptions that affect the reported amounts of assets, liabilities, revenue, and expense, and related disclosure of contingent assets and liabilities. Though the impact of the COVID-19 pandemic to our business and operating results presents additional uncertainty, we continue to use the best information available to inform our critical accounting estimates. Actual results could differ from those estimates.

The unaudited condensed consolidated financial statements include our accounts, our wholly-owned subsidiaries, majority-owned or controlled companies, and variable interest entities (VIEs) for which we are the primary beneficiary. All intercompany transactions and balances have been eliminated in consolidation. Certain prior period amounts have been reclassified to conform to the current period presentation. In management’s opinion, the accompanying unaudited condensed consolidated financial statements reflect all adjustments, consisting of normal recurring adjustments, considered necessary for a fair presentation of the results for the interim periods presented.

We evaluate our ownership, contractual and other interests in entities that are not wholly-owned to determine if these entities are VIEs, and, if so, whether we are the primary beneficiary of the VIE. In determining whether we are the primary beneficiary of a VIE and therefore required to consolidate the VIE, we apply a qualitative approach that determines whether we have both (1) the power to direct the activities of the VIE that most significantly impact the VIE’s economic performance and (2) the obligation to absorb losses of, or the rights to receive benefits from, the VIE that could potentially be significant to that VIE. We continuously perform this assessment, as changes to existing relationships or future transactions may result in the consolidation or deconsolidation of a VIE. Effective April 25, 2019, we deconsolidated the financial statements of Helix Holdings I, LLC (Helix). See note “2. Balance Sheet Account Details” for further details.

We use the equity method to account for investments through which we have the ability to exercise significant influence, but not control, over the investee. Such investments are recorded in other assets, and our share of net income or loss is recognized on a one quarter lag in other income, net.

Fiscal Year

Our fiscal year is the 52 or 53 weeks ending the Sunday closest to December 31, with quarters of 13 or 14 weeks ending the Sunday closest to March 31, June 30, September 30, and December 31. TheReferences to Q1 2020 and Q1 2019 refer to the three and six months ended June 30,March 29, 2020 and March 31, 2019, and July 1, 2018 respectively, which were both 13 and 26 weeks, respectively.

Reclassifications

Certain prior period amounts have been reclassified to conform to the current period presentation.weeks.

Significant Accounting Policies

During the three and six months ended June 30, 2019,Q1 2020, there were no changes to our significant accounting policies as described in our Annual Report on Form 10-K for the fiscal year ended December 30, 2018,29, 2019, except as described in Recently Adopted Accounting Pronouncements below.


Recently Adopted Accounting Pronouncements

In February 2016, the FASB issued ASU 2016-02, Leases (Topic 842), which requires lessees to recognize most leases on the balance sheet as lease liabilities with corresponding right-of-use assets and to disclose key information about leasing arrangements. We adopted Topic 842 on its effective date in the first quarter of 2019 using a modified retrospective approach by recognizing a cumulative-effect adjustment to retained earnings as of December 31, 2018. We elected the available package of practical expedients upon adoption, which allowed us to carry forward our historical assessment of whether existing agreements contained a lease and the classification of our existing operating leases. We continue to report our financial position as of December 30, 2018 under the former lease accounting standard (Topic 840) in our condensed consolidated balance sheet.
The following table summarizes the impact of Topic 842 on our condensed consolidated balance sheet upon adoption on December 31, 2018 (in millions):
 
December 31, 2018
(unaudited)
 Pre-adoption Adoption Impact Post-adoption
ASSETS     
Prepaid expenses and other current assets$78
 $(8) $70
Property and equipment, net1,075
 (241) 834
Operating lease right-of-use assets
 579
 579
Deferred tax assets, net70
 6
 76
Total assets$1,223
 $336
 $1,559
LIABILITIES AND STOCKHOLDERS’ EQUITY     
Accrued liabilities$513
 $36
 $549
Operating lease liabilities
 722
 722
Long-term debt1,107
 (269) 838
Other long-term liabilities359
 (135) 224
Retained earnings3,083
 (18) 3,065
Total liabilities and stockholders’ equity$5,062
 $336
 $5,398

The adoption impact summarized above was primarily due to the recognition of operating lease liabilities with corresponding right-of-use assets based on the present value of our remaining minimum lease payments, and the derecognition of existing fixed assets and financing obligations related to build-to-suit leasing arrangements that, under Topic 840, did not qualify for sale-leaseback accounting. The difference between these amounts, net of deferred tax, was recorded as a cumulative-effect adjustment to retained earnings.

Accounting Pronouncements Pending Adoption

In June 2016, the FASB issued ASU 2016-13, Financial Instruments - Credit Losses: Measurement of Credit Losses on Financial Instruments, which amends the impairment model by requiring entities to use a forward-looking approach based on expected losses to estimate credit losses on certain types of financial instruments, including

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trade receivables and available-for-sale debt securities. We expect to adoptadopted the standard on its effective date in the first quarter of 2020 using a modified retrospective approach. We currently doThe cumulative effect of applying the new credit loss standard was not expectmaterial and, therefore, did not result in an adjustment to retained earnings. There was no material difference to the condensed consolidated financial statements in Q1 2020 due to the adoption to have a material impactof ASU 2016-13.

In accordance with ASU 2016-13, we no longer evaluate whether our available-for-sale debt securities in an unrealized loss position are other than temporarily impaired. Instead, we assess whether such unrealized loss positions are credit-related. The credit-related portion of unrealized losses, and any subsequent improvements, are recorded in interest income through an allowance account. Unrealized gains and losses that are not credit-related are included in accumulated other comprehensive income (loss). We estimate our allowance for credit losses on our consolidated financial statements.trade receivables as described in our Accounts Receivable policy, below.

Revenue RecognitionAccounts Receivable

Our revenueTrade accounts receivable are considered past due based on the contractual payment terms. We reserve specific receivables when collectibility is generated primarily from the sale of products and services. Product revenue primarily consists of sales of instruments and consumables used in genetic analysis. Service and other revenue primarily consists of revenue generated from genotyping and sequencing services and instrument service contracts.

no longer probable. We recognize revenue when controlalso reserve a percentage of our productstrade receivable balance based on collection history and services is transferred to our customers in an amountcurrent economic trends that reflects the consideration we expect to receive fromwill impact the level of credit losses over the life of our customers in exchange for those productsreceivables. These reserves are re-evaluated on a regular basis and services. This process involves identifying the contract withadjusted, as needed. Once a customer, determining the performance obligations in the contract, determining the contract price, allocating the contract price to the distinct performance obligations in the contract, and recognizing revenue when the

performance obligations have been satisfied. A performance obligation is considered distinct from other obligations in a contract when it provides a benefit to the customer either on its own or together with other resources that are readily available to the customer and is separately identified in the contract. We consider a performance obligation satisfied once we have transferred control of a good or service to the customer, meaning the customer has the ability to use and obtain the benefit of the good or service.

Revenue from product sales is recognized generally upon delivery to the end customer, which is when control of the productreceivable is deemed to be transferred. Invoicing typically occurs upon shipment; and paymentuncollectible, such balance is typically due within 60 days from invoice. In instances where right of payment or transfer of title is contingent uponcharged against the customer’s acceptance of the product, revenue is deferred until all acceptance criteria have been met. Revenue from instrument service contracts is recognized as the services are rendered, typically evenly over the contract term. Revenue from genotyping and sequencing services is recognized when earned, which is generally at the time the genotyping or sequencing analysis data is made available to the customer.

Revenue is recorded net of discounts, distributor commissions, and sales taxes collected on behalf of governmental authorities. Employee sales commissions are recorded as selling, general and administrative expenses when incurred as the amortization period for such costs, if capitalized, would have been one year or less.

We regularly enter into contracts with multiple performance obligations. Revenue recognition for contracts with multiple deliverables is based on the separate satisfaction of each distinct performance obligation within the contract. Most performance obligations are generally satisfied within a short time frame, approximately three to six months after the contract execution date. As of June 30, 2019, the aggregate amount of the transaction price allocated to remaining performance obligations was $1,146 million, of which approximately 67% is expected to be converted to revenue in the next twelve months, approximately 13% in the following twelve months, and the remainder thereafter.

The contract price is allocated to each performance obligation in proportion to its standalone selling price. We determine our best estimate of standalone selling price using average selling prices over a rolling 12-month period coupled with an assessment of current market conditions. If the product or service has no history of sales or if the sales volume is not sufficient, we rely upon prices set by management, adjusted for applicable discounts.

Contract liabilities, which consist of deferred revenue and customer deposits, as of June 30, 2019 and December 30, 2018 were $201 million and $206 million, respectively, of which the short-term portions of $167 million and $175 million, respectively, were recorded in accrued liabilities and the remaining long-term portions were recorded in other long-term liabilities. Revenue recorded during the three and six months ended June 30, 2019 included $42 million and $106 million of previously deferred revenue that was included in contract liabilities as of December 30, 2018. Contract assets as of June 30, 2019 and December 30, 2018 were not material.

In certain markets, products and services are sold to customers through distributors. In most sales through distributors, the product is delivered directly to customers by us. The terms of sales transactions through distributors are consistent with the terms of direct sales to customers.

The following table represents revenue by source (in millions):
 Three Months Ended
 June 30,
2019
 July 1,
2018
 Sequencing Microarray Total Sequencing Microarray Total
Consumables$497
 $74
 $571
 $460
 $85
 $545
Instruments129
 4
 133
 124
 4
 128
Total product revenue626
 78
 704
 584
 89
 673
Service and other revenue102
 32
 134
 106
 51
 157
Total revenue$728
 $110
 $838
 $690
 $140
 $830



 Six Months Ended
 June 30,
2019
 July 1,
2018
 Sequencing Microarray Total Sequencing Microarray Total
Consumables$978
 $149
 $1,127
 $882
 $173
 $1,055
Instruments234
 11
 245
 237
 9
 246
Total product revenue1,212
 160
 1,372
 1,119
 182
 1,301
Service and other revenue215
 97
 312
 202
 109
 311
Total revenue$1,427
 $257
 $1,684
 $1,321
 $291
 $1,612

Revenue related to our previously consolidated VIE, Helix, is included in sequencing service and other revenue up to April 25, 2019, the date of Helix’s deconsolidation.

The following table represents revenue by geographic area, based on region of destination (in millions):
 Three Months Ended Six Months Ended
 June 30,
2019
 July 1,
2018
 June 30,
2019
 July 1,
2018
Americas$476
 $466
 $949
 $906
Europe, Middle East, and Africa208
 202
 418
 396
Greater China (1)97
 107
 185
 185
Asia-Pacific57
 55
 132
 125
Total revenue$838
 $830
 $1,684
 $1,612
____________________________________
(1) Region includes revenue from China, Taiwan, and Hong Kong.reserve.

Earnings per Share

Basic earnings per share attributable to Illumina stockholders is computed based on the weighted average number of common shares outstanding during the period. Diluted earnings per share attributable to Illumina stockholders is computed based on the sum of the weighted average number of common shares and potentially dilutive common shares outstanding during the period. Up to April 25, 2019, the date of Helix’s deconsolidation, per-share earningslosses of Helix were included in the consolidated basic and diluted earnings per share computations based on our share of Helix’s securities.

Potentially dilutive common shares consist of shares issuable under convertible senior notes and equity awards. Convertible senior notes have a dilutive impact when the average market price of our common stock exceeds the applicable conversion price of the respective notes. Potentially dilutive common shares from equity awards are determined using the average share price for each period under the treasury stock method. In addition, proceeds from exercise of equity awards and the average amount of unrecognized compensation expense for equity awards are assumed to be used to repurchase shares.

The following table presents the calculation of weighted average shares used to calculate basic and diluted earnings per share (in millions):share:
Three Months Ended Six Months Ended
June 30,
2019
 July 1,
2018
 June 30,
2019
 July 1,
2018
In millionsQ1 2020 Q1 2019
Weighted average shares outstanding147
 147
 147
 147
147
 147
Effect of potentially dilutive common shares from:          
Equity awards1
 1
Convertible senior notes1
 
 1
 

 1
Equity awards1
 1
 1
 1
Weighted average shares used in calculating diluted earnings per share149
 148
 149
 148
148
 149
Potentially dilutive shares excluded from calculation due to anti-dilutive effect1
 1



2. Balance Sheet Account Details

Short-term investments

Our short-term investments are primarily available-for-sale debt securities that consisted of the following (in millions):
 June 30, 2019 December 30, 2018
 
Amortized
Cost
 
Gross
Unrealized
Gains
 
Estimated
Fair Value
 
Amortized
Cost
 
Gross
Unrealized
Gains
 
Gross
Unrealized
Losses
 
Estimated
Fair Value
Debt securities in government sponsored entities$26
 $
 $26
 $21
 $
 $
 $21
Corporate debt securities553
 4
 557
 1,060
 
 (2) 1,058
U.S. Treasury securities488
 2
 490
 1,250
 1
 (1) 1,250
Total$1,067
 $6
 $1,073
 $2,331
 $1
 $(3) $2,329


Realized gains and losses are determined based on the specific identification method and are reported in interest income.

Contractual maturities of available-for-sale debt securities, as of June 30, 2019, were as follows (in millions):
 
Estimated
Fair Value
Due within one year$516
After one but within five years557
Total$1,073


We have the ability, if necessary, to liquidate any of our cash equivalents and short-term investments to meet our liquidity needs in the next 12 months. Accordingly, those investments with contractual maturities greater than one year from the date of purchase are classified as short-term on the accompanying condensed consolidated balance sheets.

Strategic Investments

We have strategic investments in privately held companies (non-marketable equity securities) and companies that have completed initial public offerings (marketable equity securities).

Our marketable equity securities are measured at fair value. As of June 30, 2019 and December 30, 2018, the fair value of our marketable equity securities, included in short-term investments, totaled $157 million and $39 million, respectively. Total unrealized gains on our marketable equity securities, included in other income, net, were $102 million and $104 million for the three and six months ended June 30, 2019, respectively.

Our non-marketable equity securities without readily determinable market values are initially measured at cost and adjusted to fair value for observable transactions for identical or similar investments of the same issuer or impairment. As of June 30, 2019 and December 30, 2018, the aggregate carrying amounts of our non-marketable equity investments without readily determinable fair values, included in other assets, were $217 million and $231 million, respectively.

One of our non-marketable equity investments is a VIE for which we have concluded that we are not the primary beneficiary, and therefore, we do not consolidate this VIE in our consolidated financial statements. We have determined our maximum exposure to loss, as a result of our involvement with the VIE, to be the carrying value of our investment, which was $189 million as of June 30, 2019 and December 30, 2018.

We invest in a venture capital investment fund (the Fund) with a capital commitment of $100 million that is callable through April 2026, of which $57 million remained callable as of June 30, 2019. Our investment in the Fund is accounted for as an equity-method investment. The carrying amounts of the Fund, included in other assets, were $47 million and $29 million as of June 30, 2019 and December 30, 2018, respectively. In July 2019, we invested in a second venture capital investment fund with a maximum capital commitment of up to $160 million that is callable through July 2029.

Revenue recognized from transactions with our strategic investees was $18 million and $34 million, respectively, for the three and six months ended June 30, 2019 and $36 million and $72 million, respectively, for the three and six months ended July 1, 2018.

Inventory

Inventory consisted of the following (in millions):
 June 30,
2019
 December 30,
2018
Raw materials$124
 $117
Work in process271
 218
Finished goods25
 51
Total inventory$420
 $386


Property and Equipment

Property and equipment, net consisted of the following (in millions):
 June 30,
2019
 December 30,
2018
Leasehold improvements$596
 $567
Machinery and equipment400
 382
Computer hardware and software263
 217
Furniture and fixtures47
 45
Buildings44
 285
Construction in progress59
 100
Total property and equipment, gross1,409
 1,596
Accumulated depreciation(555) (521)
Total property and equipment, net$854
 $1,075


Property and equipment, net included non-cash expenditures of $18 million and $42 million for the six months ended June 30, 2019 and July 1, 2018, respectively, which were excluded from the condensed consolidated statements of cash flows. Such non-cash expenditures included $16 million recorded under build-to-suit lease accounting for the six months ended July 1, 2018.

As of December 30, 2018, property and equipment, net included $241 million of project construction costs paid or reimbursed by our landlord related to our build-to-suit leases that did not qualify for sale-leaseback accounting under Topic 840. Upon adoption of Topic 842 on December 31, 2018, we derecognized the Buildings related to our build-to-suit leasing arrangements and began to account for these leases as operating leases. See note “1. Basis of Presentation and Summary of Significant Accounting Policies” for further details on the adoption impact of Topic 842.

Leases

We lease approximately 2.5 million square feet of office, lab, and manufacturing facilities under various non-cancellable operating lease agreements (real estate leases). Our real estate leases have remaining lease terms of 1 to 20 years, which represent the non-cancellable periods of the leases and include extension options that we determined are reasonably certain to be exercised. We exclude extension options that are not reasonably certain to be exercised from our lease terms, ranging from 6 months to 20 years. Our lease payments consist primarily of fixed rental payments for the right to use the underlying leased assets over the lease terms as well as payments for common-area-maintenance and administrative services. We often receive customary incentives from our landlords, such as reimbursements for tenant improvements and rent abatement periods, which effectively reduce the total lease payments owed for these leases.


Operating lease right-of-use assets and liabilities on our condensed consolidated balance sheets represent the present value of our remaining lease payments over the remaining lease terms. We do not allocate lease payments to non-lease components; therefore, fixed payments for common-area-maintenance and administrative services are included in our operating lease right-of-use assets and liabilities. We use our incremental borrowing rate to calculate the present value of our lease payments, as the implicit rates in our leases are not readily determinable.

As of June 30, 2019, the maturities of our operating lease liabilities were as follows (in millions):
 Remaining Lease Payments
2019$35
202082
202181
202283
202385
Thereafter619
Total remaining lease payments (1)985
Less: imputed interest(243)
Total operating lease liabilities742
Less: current portion(44)
Long-term operating lease liabilities$698
Weighted-average remaining lease term11.5 years
Weighted-average discount rate4.6%

(1) Total remaining lease payments exclude $53 million of legally binding minimum lease payments for leases signed but not yet commenced.

The components of our lease costs included in our condensed consolidated statements of income were as follows (in millions):
 Three Months Ended Six Months Ended
 June 30, 2019 June 30, 2019
Operating lease costs$21
 $43
Sublease income(3) (6)
Total lease costs$18
 $37


Operating lease costs consist of the fixed lease payments included in our operating lease liabilities and are recorded on a straight-line basis over the lease terms. We sublease certain real estate to third parties and this sublease income is also recorded on a straight-line basis.

Goodwill

We test the carrying value of goodwill in accordance with accounting rules on impairment of goodwill, which require us to estimate the fair value of each reporting unit annually, or when impairment indicators exist, and compare such amounts to their respective carrying values to determine if an impairment is required. We performed the annual assessment for goodwill impairment in the second quarter of 2019, noting no impairment. 

Changes to goodwill during the six months ended June 30, 2019 were as follows (in millions):
 Goodwill
Balance as of December 30, 2018$831
Helix deconsolidation(7)
Balance as of June 30, 2019$824


Derivatives

We are exposed to foreign exchange rate risks in the normal course of business. We enter into foreign exchange contracts to manage foreign currency risks related to monetary assets and liabilities that are denominated in currencies other than the U.S. dollar. These foreign exchange contracts are carried at fair value in other current assets or accrued liabilities and are not designated as hedging instruments. Changes in the value of the derivatives are recognized in other (expense) income, net, along with the remeasurement gain or loss on the foreign currency denominated assets or liabilities.

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As of June 30, 2019,March 29, 2020, we had foreign exchange forward contracts in place to hedge exposures in the euro, Japanese yen, Australian dollar, Canadian dollar, Singapore dollar, Chinese Yuan Renminbi, and British pound. As of June 30, 2019March 29, 2020 and December 30, 2018,29, 2019, the total notional amounts of outstanding forward contracts in place for foreign currency purchases were $256$294 million and $122$252 million, respectively.

Accrued Liabilities

Accrued liabilities consisted of the following (in millions):
 June 30,
2019
 December 30,
2018
Contract liabilities, current portion$167
 $175
Accrued compensation expenses132
 193
Accrued taxes payable66
 82
Operating lease liabilities, current portion44
 
Other, including warranties64
 63
Total accrued liabilities$473
 $513


Warranties

We generally provide a one-year warranty on instruments. Additionally, we provide a warranty on consumables through the expiration date, which generally ranges from six to twelve months after the manufacture date. At the time revenue is recognized, an accrual is established for estimated warranty expenses based on historical experience as well as anticipated product performance. We periodically review the warranty reserve for adequacy and adjust the warranty accrual, if necessary, based on actual experience and estimated costs to be incurred. Warranty expense is recorded as a component of cost of product revenue.

2. REVENUE

Our revenue is generated primarily from the sale of products and services. Product revenue primarily consists of sales of instruments and consumables used in genetic analysis. Service and other revenue primarily consists of revenue generated from genotyping and sequencing services, instrument service contracts, and development and licensing agreements.

Revenue by Source
 Q1 2020 Q1 2019
In millionsSequencing Microarray Total Sequencing Microarray Total
Consumables$553
 $67
 $620
 $481
 $75
 $556
Instruments79
 2
 81
 105
 6
 111
Total product revenue632
 69
 701
 586
 81
 667
Service and other revenue128
 30
 158
 113
 66
 179
Total revenue$760
 $99
 $859
 $699
 $147
 $846

Revenue by Geographic Area

Based on region of destination (in millions)Q1 2020 Q1 2019
Americas$477
 $473
Europe, Middle East, and Africa221
 210
Greater China (1)84
 88
Asia-Pacific77
 75
Total revenue$859
 $846
Changes____________________________________
(1) Region includes revenue from China, Taiwan, and Hong Kong.

Performance Obligations

We regularly enter into contracts with multiple performance obligations. Most performance obligations are generally satisfied within a short time frame, approximately three to six months, after the contract execution date. As of March 29, 2020, the aggregate amount of the transaction price allocated to remaining performance obligations was $1,151 million, of which approximately 73% is expected to be converted to revenue in the reserve for product warranties duringnext twelve months, approximately 12% in the threefollowing twelve months, and six months ended the remainder thereafter.

Contract Liabilities


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Contract liabilities, which consist of deferred revenue and July 1, 2018customer deposits, as of March 29, 2020 and December 29, 2019 were $203 million and $209 million, respectively, of which the short-term portions of $158 million and $167 million, respectively, were recorded in accrued liabilities and the remaining long-term portions were recorded in other long-term liabilities. Revenue recorded in Q1 2020 included $67 million of previously deferred revenue that was included in contract liabilities as follows (in millions):of December 29, 2019.

 Three Months Ended Six Months Ended
 June 30,
2019
 July 1,
2018
 June 30,
2019
 July 1,
2018
Balance at beginning of period$16
 $16
 $19
 $17
Additions charged to cost of product revenue6
 6
 9
 12
Repairs and replacements(6) (7) (12) (14)
Balance at end of period$16
 $15
 $16
 $15
3. INVESTMENTS AND FAIR VALUE MEASUREMENTS

Debt Securities

Our short-term investments are primarily available-for-sale debt securities that consisted of the following:
 March 29, 2020 December 29, 2019
In millions
Amortized
Cost
 
Gross
Unrealized
Gains
 
Gross
Unrealized
Losses
 
Estimated
Fair Value
 
Amortized
Cost
 
Gross
Unrealized
Gains
 
Estimated
Fair Value
Debt securities in government-sponsored entities$21
 $
 $
 $21
 $18
 $
 $18
Corporate debt securities613
 2
 (5) 610
 627
 3
 630
U.S. Treasury securities591
 10
 
 601
 616
 2
 618
Total$1,225
 $12
 $(5) $1,232
 $1,261
 $5
 $1,266


DeconsolidationRealized gains and losses are determined based on the specific-identification method and are reported in interest income.

Contractual maturities of available-for-sale debt securities, as of March 29, 2020, were as follows:
 In millions
Estimated
Fair Value
Due within one year$450
After one but within five years782
Total$1,232


We have the ability, if necessary, to liquidate any of our cash equivalents and short-term investments to meet our liquidity needs in the next 12 months. Accordingly, those investments with contractual maturities greater than one year from the date of purchase are classified as short-term on the accompanying condensed consolidated balance sheets.

Strategic Investments

Marketable Equity Securities

As of March 29, 2020 and December 29, 2019, the fair value of our marketable equity securities, included in short-term investments, totaled $109 million and $106 million, respectively. Total unrealized gains on our marketable equity securities, included in other (expense) income, net, were $3 million in Q1 2020.

Non-Marketable Equity Securities

As of March 29, 2020 and December 29, 2019, the aggregate carrying amounts of our non-marketable equity securities without readily determinable fair values, included in other assets, were $220 million.

One of our investments is a VIE for which we have concluded that we are not the primary beneficiary, and therefore, we do not consolidate this VIE in our consolidated financial statements. We have determined our maximum exposure to loss, as a result of our involvement with the VIE, to be the carrying value of our investment, which was $190 million as of March 29, 2020 and December 29, 2019, recorded in other assets. On April 17, 2020, we made an additional $60 million investment in this VIE.


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Revenue recognized from transactions with our strategic investees was $13 million and $15 million in Q1 2020 and Q1 2019, respectively.

Venture Funds

We invest in 2 venture capital investment funds (the Funds) with capital commitments of $100 million, callable through April 2026, and up to $160 million, callable through July 2029, respectively, of which $51 million and up to $160 million, respectively, remained callable as of March 29, 2020. Our investments in the Funds are accounted for as equity-method investments. The aggregate carrying amounts of the Funds, included in other assets, were $55 million and $53 million as of March 29, 2020 and December 29, 2019, respectively.

Previously Consolidated Variable Interest Entity

Helix Holdings I, LLC

In July 2015, we obtained a 50% voting equity ownership interest in Helix. WeAt that time, we determined that we had unilateral power over one of the activities that most significantly impacts the economic performance of Helix through its contractual arrangements and, as a result, we were deemed to be the primary beneficiary of Helix and were required to consolidate Helix. The operations of Helix are included in the accompanying condensed consolidated statements of income for Q1 2019 and up to the date of the deconsolidation, described below. During this period, we absorbed 50% of Helix’s losses.

On April 25, 2019, we entered into an agreement to sell our interest in, and relinquish control over, Helix. As part of the agreement, (i) Helix repurchased all of our outstanding equity interests previously issued to us in exchange for a contingent value right with a 7-year term that entitles us to consideration dependent upon the outcome of Helix’s future financing and/or liquidity events, (ii) we ceased having a controlling financial interest in Helix, including unilateral power over one of the activities that most significantly impacts the economic performance of Helix, (iii) we were relieved of any potential obligation to redeem

certain noncontrolling interests, and (iv) we no longer have representation on Helix’s board of directors. As a result, we deconsolidated Helix’s financial statements effective April 25, 2019 and recorded a gain on deconsolidation of $39 million in other (expense) income, net. The gain on deconsolidation includesincluded (i) the contingent value right received from Helix for its repurchase of our ownership interest, recorded at itsa fair value of approximately $30 million, (ii) the derecognition of the carrying amounts of Helix’s assets and liabilities, and (iii) the derecognition of the noncontrolling interests related to Helix. The operations of Helix, up to the date of deconsolidation, are included in the accompanying condensed consolidated statements of income for the three and six months ended June 30, 2019 and July 1, 2018. During these periods, we absorbed 50% of Helix’s losses.

The contingent value right entitles us to receive considerationDuring Q1 2020, changes in an amount dependent upon the outcome of future financing and/or liquidity events related to Helix and has a term of seven years. We elected the fair value option to measureof the contingent value right which is included in other assets. During the three months ended June 30, 2019, the fair value measurement resulted in a $3 million unrealized loss, included in other (expense) income, net. The fair value of the contingent value right is derived using a Monte Carlo simulation. Significant estimates and assumptions required for this valuation include, but are not limited to, probabilities related to the timing and outcome of future financing and/or liquidity events and an assumption regarding collectibility. These unobservable inputs, which represent a Level 3 measurement, are supported by little or no market activity and reflect our own assumptions in measuring fair value.

Concurrent with the agreementDerivative Assets Related to sell all of our outstanding equity interests, we also amended our long-term supply and license agreements with Helix, including the discounted supply terms. Because these agreements were entered into concurrently, we consider them to be one arrangement with multiple elements, as defined under the respective authoritative accounting guidance. We determined that each of the elements, which include the contingent value right and services to be provided in accordance with the long-term supply and license agreements, were at, or approximated, fair value on a stand-alone basis. Therefore, none of the deconsolidation gain was allocated to these elements.

Redeemable Noncontrolling Interests

The activity of the redeemable noncontrolling interests during the six months ended June 30, 2019 was as follows (in millions):
 Redeemable Noncontrolling Interests
Balance as of December 30, 2018$61
Vesting of redeemable equity awards1
Net loss attributable to noncontrolling interests(9)
Adjustment down to the redemption value(16)
Release of potential obligation to noncontrolling interests(37)
Balance as of June 30, 2019$


3. PendingTerminated Acquisition

On November 1, 2018, we entered into an Agreement and Plan of Merger (the Merger Agreement (the Merger Agreement)) to acquire Pacific Biosciences of California, Inc. (PacBio) for an all-cash price of approximately $1.2 billion (or $8.00 per share). On January 2, 2020, we entered into an agreement to terminate the Merger Agreement (the Termination Agreement). Pursuant to the Termination Agreement, we made a cash payment to PacBio of $98 million on January 2, 2020, which represented the Reverse Termination Fee (as defined in the Merger Agreement). The Reverse Termination Fee is repayable, without interest, to us if PacBio enters into a definitive agreement providing for, or consummates, a Change of Control Transaction by September 30, 2020 (as defined in the Termination Agreement), and such transaction which is now expectedconsummated by the two-year anniversary of the execution of the definitive agreement for such Change of Control Transaction. In addition, we made cash payments to closePacBio of $18 million in Q4 2019, is subjectpursuant to certain customary closing conditions, including the receipt of certain required antitrust approvals. The Merger Agreement contains certain termination rights and provides that, upon termination ofAmendment No. 1 to the Merger Agreement under specified circumstances, including but not limited to, a termination of the Merger Agreement, and $34 million in connection with PacBio accepting a superior offer or dueQ1 2020, pursuant to the withdrawalTermination Agreement, collectively referred to as the Continuation Advances. Up to the $52 million of Continuation Advances is repayable without interest to us if, within two years of March 31, 2020, PacBio enters into a Change of Control Transaction or raises at least $100 million in equity or debt financing in a single transaction (with the amount repayable dependent on the amount raised by PacBio’s board of directors of its recommendation of the merger, PacBio will pay us a cash termination fee of $43 million. In certain other circumstances related to antitrust approvals, we may be required to pay PacBio a termination fee of $98 million assuming the other closing conditions not related to antitrust or competition laws have been satisfied.PacBio).


The potential repayments of the Continuation Advances and Reverse Termination Fee meet the definition of derivative assets and are recorded at fair value. The $92 million difference between the $132 million in cash paid during Q1 2020 for the Continuation Advances and Reverse Termination Fee and the $40 million fair value of these derivative assets on the payment dates was recorded as selling, general and administrative expenses. Changes in
4.
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the fair value of the derivative assets are included in other (expense) income, net, and totaled a $4 million unrealized loss in Q1 2020.

Fair Value Measurements

The following table presents the hierarchy for assets and liabilities measured at fair value on a recurring basis as of June 30, 2019 and December 30, 2018 (in millions):basis:
June 30, 2019 December 30, 2018March 29, 2020 December 29, 2019
Level 1 Level 2 Level 3 Total Level 1 Level 2 Level 3 Total
In millionsLevel 1 Level 2 Level 3 Total Level 1 Level 2 Level 3 Total
Assets:                              
Money market funds (cash equivalents)$1,631
 $
 $
 $1,631
 $832
 $
 $
 $832
$1,733
 $
 $
 $1,733
 $1,732
 $
 $
 $1,732
Debt securities in government-sponsored entities
 26
 
 26
 
 21
 
 21

 21
 
 21
 
 18
 
 18
Corporate debt securities
 557
 
 557
 
 1,058
 
 1,058

 610
 
 610
 
 630
 
 630
U.S. Treasury securities490
 
 
 490
 1,250
 
 
 1,250
601
 
 
 601
 618
 
 
 618
Marketable equity securities157
 
 
 157
 39
 
 
 39
109
 
 
 109
 106
 
 
 106
Contingent value right
 
 27
 27
 
 
 
 

 
 26
 26
 
 
 29
 29
Derivative assets related to terminated acquisition
 
 47
 47
 
 
 10
 10
Deferred compensation plan assets
 44
 
 44
 
 34
 
 34

 40
 
 40
 
 48
 
 48
Total assets measured at fair value$2,278
 $627
 $27
 $2,932
 $2,121
 $1,113
 $
 $3,234
$2,443
 $671
 $73
 $3,187
 $2,456
 $696
 $39
 $3,191
Liabilities:                              
Deferred compensation plan liability$
 $42
 $
 $42
 $
 $33
 $
 $33
$
 $38
 $
 $38
 $
 $46
 $
 $46


We holdOur available-for-sale securities that consist of highly-liquid, investment-grade debt securities and marketable equity securities. We consider information provided by our investment accounting and reporting service provider in the measurement of fair value of our debt securities. The investment service provider provides valuation information from an industry-recognized valuation service. Such valuations may be based on trade prices in active markets for identical assets or liabilities (Level 1 inputs) or valuation models using inputs that are observable either directly or indirectly (Level 2 inputs), such as quoted prices for similar assets or liabilities, yield curve, volatility factors, credit spreads, default rates, loss severity, current market and contractual prices for the underlying instruments or debt, broker and dealer quotes, as well as other relevant economic measures. Our marketable equity securities are measured at fair value based on quoted trade prices in active markets. Our deferred compensation plan assets consist primarily of investments in life insurance contracts carried at cash surrender value, which reflects the net asset value of the underlying publicly traded mutual funds. We perform control procedures to corroborate the fair value of our holdings, including comparing valuations obtained from our investment service provider to valuations reported by our asset custodians, validating pricing sources and models, and reviewing key model inputs, if necessary. Our marketable equity securitiesWe elected the fair value option to measure the contingent value right received from Helix. The fair value of our contingent value right, included in other assets, is derived using a Monte Carlo simulation. The derivative assets related to the terminated acquisition of PacBio are financial instruments measured at fair value, based on quoted trade pricesincluded in active markets.other assets. Significant estimates and assumptions required for these valuations include, but are not limited to, probabilities related to the timing and outcome of future financing and/or liquidity events and an assumption regarding collectibility. These unobservable inputs represent a Level 3 measurement because they are supported by little or no market activity and reflect our own assumptions in measuring fair value.



5. Debt and Other Commitments
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4. DEBT

Summary of debt obligations

Debt obligations consisted of the following (dollars in millions):
June 30,
2019
 December 30,
2018
In millionsMarch 29,
2020
 December 29,
2019
Principal amount of 2023 Notes outstanding$750
 $750
$750
 $750
Principal amount of 2021 Notes outstanding517
 517
517
 517
Principal amount of 2019 Notes outstanding
 633
Unamortized discount of liability component of convertible senior notes(147) (175)(116) (126)
Net carrying amount of liability component of convertible senior notes1,120
 1,725
1,151
 1,141
Obligations under financing leases
 269
Other
 3
Less: current portion
 (1,107)(499) 
Long-term debt$1,120
 $890
$652
 $1,141
Carrying value of equity component of convertible senior notes, net of debt issuance costs$213
 $287
$213
 $213
Fair value of convertible senior notes outstanding (Level 2)$1,658
 $2,222
$1,361
 $1,549
Weighted-average remaining amortization period of discount on the liability component of convertible senior notes3.7 years
 3.9 years
3.0 years
 3.2 years


Convertible Senior Notes

0% Convertible Senior Notes due 2023 (2023 Notes)

On August 21, 2018, we issued $750 million aggregate principal amount of convertible senior notes due 2023 (2023 Notes). The 2023 Notes mature on August 15, 2023, and the implied estimated effective rate of the liability component of the Notes was 3.7%, assuming no conversion option.

The 2023 Notes will be convertible into cash, shares of our common stock or a combination of cash and shares of our common stock, at our election, based on an initial conversion rate, subject to adjustment, of 2.1845 shares of common stock per $1,000 principal amount of notes (which represents an initial conversion price of approximately $457.77 per share of common stock), only in the following circumstances: (1) during any calendar quarter commencing after the calendar quarter ending on September 30, 2018 (and only during such calendar quarter), if the last reported sale price of our common stock for at least 20 trading days (whether or not consecutive) during a period of 30 consecutive trading days ending on, and including, the last trading day of the immediately preceding calendar quarter is greater than or equal to 130% of the conversion price in effect on each applicable trading day; (2) during the five5 business day period after any 10 consecutive trading day period (the “measurement period”) in which the trading price per $1,000 principal amount of 2023 Notes for each trading day of the measurement period was less than 98% of the product of the last reported sale price of our common stock and the conversion rate on each such trading day; (3) if we call any or all of the notes for redemption, at any time prior to the close of business on the scheduled trading day immediately preceding the redemption date; or (4) upon the occurrence of specified corporate events described in the indenture. Regardless of the foregoing circumstances, the holders may convert their notes on or after May 15, 2023 until August 11, 2023.

We may redeem for cash all or any portion of the 2023 Notes, at our option, on or after August 20, 2021 if the last reported sale price of our common stock has been at least 130% of the conversion price then in effect (currently $595.10) for at least 20 trading days (whether or not consecutive) during any 30 consecutive trading day period (including the last trading day of such period) ending on, and including, the trading day immediately preceding the date on which we provide notice of redemption at a redemption price equal to 100% of the principal amount of the notes to be redeemed, plus any accrued and unpaid special interest to, but excluding, the redemption date.
 
The 2023 Notes were not convertible as of June 30, 2019March 29, 2020 and had no dilutive impact during the sixthree months ended June 30, 2019.March 29, 2020. If the 2023 Notes were converted as of June 30, 2019,March 29, 2020, the if-converted value would not exceed the principal amount.


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0.5% Convertible Senior Notes due 2021 (2021 Notes)

In June 2014, we issued $517 million aggregate principal amount of 2021 Notes. The 2021 Notes mature on June 15, 2021, and the implied estimated effective rates of the liability component of the Notes was 3.5%, assuming no conversion option.

The 2021 Notes will be convertible into cash, shares of common stock, or a combination of cash and shares of common stock, at our election, based on an initial conversion rate, subject to adjustment, of 3.9318 shares per $1,000 principal amount of the notes (which represents an initial conversion price of approximately $254.34 per share), only in the following circumstances: (1) during any calendar quarter commencing after the calendar quarter ending September 30, 2014 (and only during such calendar quarter), if the last reported sale price of our common stock for 20 or more trading days in the period of 30 consecutive trading days ending on the last trading day of the immediately preceding calendar quarter exceeds 130% of the applicable conversion price in effect on the last trading day of the immediately preceding calendar quarter; (2) during the 5 business day period after any 10 consecutive trading day period (the “measurement period”) in which the trading price per 2021 Notes for each day of such measurement period was less than 98% of the product of the last reported sale price of our common stock and the conversion rate on each such trading day; or (3) upon the occurrence of specified events described in the indenture for the 2021 Notes. Regardless of the foregoing circumstances, the holders of the 2021 Notes may convert their notes on or after March 15, 2021 until June 11, 2021.

The potential dilutive impact of the 2021 Notes has been included in our calculation of diluted earnings per share for the three and six months ended June 30, 2019.Q1 2020. If the 2021 Notes were converted as of June 30, 2019,March 29, 2020, the if-converted value would not exceed the principal amount by $182 million.amount. The 2021 Notes were not convertible as of March 29, 2020. During Q1 2020, the carrying value of the 2021 Notes was reclassified to short-term as they become convertible within twelve months of the balance sheet date.

0% Convertible Senior Notes due 2019 (2019 Notes)

In June 2014, we issued $633 million aggregate principal amount of 2019 Notes, and the implied estimated effective rate of the liability component of the Notes was 2.9%, assuming no conversion option. The 2019 Notes were convertible into cash, shares of common stock, or a combination of common stock, at our election, based on conversion rates as defined in the indenture.. The 2019 Notes matured on June 15, 2019, by which timeand the principal had been converted and was repaid in cash. The excess of the conversion value over the principal amount was paid in 0.4 million shares of common stock.

The following table summarizes information about the conversion of the 2019 Notes during the six months ended June 30, 2019 (in millions):
5. STOCKHOLDERS’ EQUITY
 2019 Notes
Cash paid for principal of notes converted$633
Conversion value over principal amount, paid in shares of common stock$153
Number of shares of common stock issued upon conversion0.4

Obligations under financing leases

As of December 30, 2018, obligations under financing leases of $269 million represented project construction costs paid or reimbursed by our landlord related to our build-to-suit leases that did not qualify for sale-leaseback accounting under Topic 840. Upon adoption of Topic 842 on December 31, 2018, we derecognized the remaining financing obligations for our build-to-suit leasing arrangements and began to account for these leases as operating leases. See note “1. Basis of Presentation and Summary of Significant Accounting Policies” for further details on the adoption of Topic 842.

6. Stockholders’ Equity

As of June 30, 2019,March 29, 2020, approximately 4.94.1 million shares remained available for future grants under the 2015 Stock Plan.


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Restricted Stock

Restricted stock activity for the six months ended June 30, 2019was as follows (units in thousands):follows:
Restricted
Stock Units
(RSU)
 
Performance
Stock Units
(PSU)(1)
  
Restricted
Stock Units
(RSU)
 
Performance
Stock Units
(PSU)(1)
 Weighted-Average Grant Date Fair Value per Share
 RSU PSU
Outstanding at December 30, 20181,840
 660
 $227.00
 $196.99
Units in thousands
Restricted
Stock Units
(RSU)
 
Performance
Stock Units
(PSU)(1)
 RSU PSU
Outstanding at December 29, 2019 $271.49
 $258.66
Awarded52
 (42) $305.68
 $258.92
82
 55
 $300.29
 $348.46
Vested(65) 
 $195.44
 
(26) 
 $198.43
 
Cancelled(83) (49) $215.41
 $167.43
(70) (30) $260.73
 $254.81
Outstanding at June 30, 20191,744
 569
 $231.06
 $194.97
Outstanding at March 29, 20201,686
 296
 $274.46
 $275.65

(1)The number of units reflect the estimated number of shares to be issued at the end of the performance period.

Stock Options

Stock option activity during the six months ended June 30, 2019was as follows:
 
Options
(in thousands)
 
Weighted-Average
Exercise Price
Outstanding at December 30, 2018192
 $54.52
Exercised(85) $49.82
Outstanding and exercisable at June 30, 2019107
 $58.26
 
Options
(in thousands)
 
Weighted-Average
Exercise Price
Outstanding at December 29, 201958
 $56.65
Exercised(17) $36.62
Outstanding and exercisable at March 29, 202041
 $64.63


ESPP

The price at which common stock is purchased under the ESPPEmployee Stock Purchase Plan (ESPP) is equal to 85% of the fair market value of the common stock on the first day of the offering period or purchase date, whichever is lower. During the six months ended June 30, 2019,Q1 2020, approximately 0.1 million shares were issued under the ESPP. As of June 30, 2019,March 29, 2020, there were approximately 13.613.4 million shares available for issuance under the ESPP.
 
Share Repurchases

On February 6, 2019,5, 2020, our Board of Directors authorized a new share repurchase program, which supersedes all prior and available repurchase authorizations, to repurchase $550$750 million of outstanding common stock. The repurchases may be completed under a 10b5-1 plan or at management’s discretion. During the six months ended June 30, 2019,Q1 2020, we repurchased 0.20.7 million shares for approximately $63$187 million.  Authorizations to repurchase approximately $488$563 million of our common stock remained available as of June 30, 2019.March 29, 2020.





Share-based Compensation

Share-based compensation expense reported in our condensed consolidated statements of income was as follows (in millions):follows:
Three Months Ended Six Months Ended
June 30,
2019
 July 1,
2018
 June 30,
2019
 July 1,
2018
In millionsQ1 2020 Q1 2019
Cost of product revenue$5
 $4
 $10
 $8
$5
 $5
Cost of service and other revenue1
 1
 2
 2
1
 1
Research and development16
 15
 34
 30
15
 18
Selling, general and administrative26
 30
 53
 58
18
 27
Share-based compensation expense before taxes48
 50
 99
 98
39
 51
Related income tax benefits(11) (11) (21) (21)(9) (10)
Share-based compensation expense, net of taxes$37
 $39
 $78
 $77
$30
 $41



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The assumptions used for the specified reporting periods and the resulting estimates of weighted-average fair value per share for stock purchased under the Employee Stock Purchase Plan (ESPP)ESPP during the six months ended June 30, 2019Q1 2020 were as follows:
Employee Stock Purchase RightsEmployee Stock Purchase Rights
Risk-free interest rate1.89% - 2.56%
1.46% - 2.56%
Expected volatility30% - 38%
30% - 37%
Expected term0.5 - 1.0 year
0.5 - 1.0 year
Expected dividends0%0%
Weighted-average grant-date fair value per share$71.48
$77.19


As of June 30, 2019,March 29, 2020, approximately $372$458 million of total unrecognized compensation cost related to restricted stock and ESPP shares issued to date was expected to be recognized over a weighted-average period of approximately 2.12.4 years.

7. Legal Proceedings
6. SUPPLEMENTAL BALANCE SHEET DETAILS


Accounts Receivable
In millionsMarch 29,
2020
 December 29,
2019
Trade accounts receivable, gross$473
 $575
Allowance for credit losses(1) (2)
Total accounts receivable, net$472
 $573


Inventory
In millionsMarch 29,
2020
 December 29,
2019
Raw materials$114
 $108
Work in process243
 225
Finished goods27
 26
Total inventory$384
 $359


Accrued Liabilities
In millionsMarch 29,
2020
 December 29,
2019
Contract liabilities, current portion$158
 $167
Accrued compensation expenses112
 154
Accrued taxes payable54
 86
Operating lease liabilities, current portion46
 45
Other, including warranties (a)55
 64
Total accrued liabilities$425
 $516


(a) Changes in the reserve for product warranties were as follows:
In millionsQ1 2020 Q1 2019
Balance at beginning of period$14
 $19
Additions charged to cost of product revenue3
 3
Repairs and replacements(5) (6)
Balance at end of period$12
 $16



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7. LEGAL PROCEEDINGS

We are involved in various lawsuits and claims arising in the ordinary course of business, including actions with respect to intellectual property, employment, and contractual matters. In connection with these matters, we assess, on a regular basis, the probability and range of possible loss based on the developments in these matters. A liability is recorded in the consolidated financial statements if it is believed to be probable that a loss has been incurred and the amount of the loss can be reasonably estimated. Because litigation is inherently unpredictable and unfavorable resolutions could occur, assessing contingencies is highly subjective and requires judgments about future events. We regularly review outstanding legal matters to determine the adequacy of the liabilities accrued and related disclosures in consideration of many factors, which include, but are not limited to, past history, scientific and other evidence, and the specifics and status of each matter. We may change our estimates if our assessment of the various factors changes and the amount of ultimate loss may differ from our estimates, resulting in a material effect on our business, financial condition, results of operations, and/or cash flows.

8. Income Taxes
8. INCOME TAXES

Our effective tax rate may vary from the U.S. federal statutory tax rate due to the change in the mix of earnings in tax jurisdictions with different statutory rates, benefits related to tax credits, and the tax impact of non-deductible expenses and other permanent differences between income before income taxes and taxable income. The effective tax rates for the three and six months ended June 30, 2019 were 15.4% and 10.8%, respectively. For the three and six months ended June 30, 2019,rate in Q1 2020 was 2.5%. In Q1 2020, the decrease from the U.S. federal statutory tax rate of 21% was primarily attributable to discrete tax benefits related to the derivative assets recorded as a result of the terminated PacBio acquisition, the mix of earnings in jurisdictions with lower statutory tax rates than the U.S. federal statutory tax rate, such as in Singapore and the United Kingdom. For the six months ended June 30, 2019, the decrease from the U.S. federal statutory tax rate was also attributable to a discrete tax benefit related to uncertain tax positions recorded in Q1 2019Kingdom, and excess tax benefits related to share-based compensation.


9. Segment Information
9. SEGMENT INFORMATION


We report segment information based on the management approach. This approach designates the internal reporting used by the Chief Operating Decision Maker (CODM) for making decisions and assessing performance as the source of our reportable segments. The CODM allocates resources and assesses the performance of each operating segment using information about its revenue and income (loss) from operations. Based on the information used by the CODM, we have determined we have one1 reportable segment, Core Illumina, as of March 29, 2020, which relates to Illumina’s core operations. Prior to the Helix deconsolidation on April 25, 2019, our reportable segments included both Core Illumina and Helix. See note “3. Investments and Fair Value Measurements” for further details.

Core Illumina:Illumina:

Core Illumina’s products and services serve customers in the research, clinical and applied markets, and enable the adoption of a variety of genomic solutions. Core Illumina includes all of our operations, excluding the results of our previously consolidated VIE, Helix.

Helix:

Helix was established to enable individuals to explore their genetic information by providing affordable sequencing and database services for consumers through third-party partners, driving the creation of an ecosystem of consumer applications. Helix was deconsolidated on April 25, 2019. See note “2. Balance Sheet Account Details” for further details.

Management evaluates the performance of our reportable segments based upon income (loss) from operations. We do not allocate expenses between segments. Core Illumina sells products and provides services to Helix in accordance with contractual agreements between the entities.

The following table presents the operating performance
20

Table of each reportable segment (in millions):Contents

 Three Months Ended Six Months Ended
 June 30,
2019
 July 1,
2018
 June 30,
2019
 July 1,
2018
Revenue:       
Core Illumina$838
 $829
 $1,684
 $1,612
Helix
 3
 1
 6
Elimination of intersegment revenue
 (2) (1) (6)
Consolidated revenue$838
 $830
 $1,684
 $1,612
        
Income (loss) from operations:       
Core Illumina$211
 $246
 $433
 $484
Helix(6) (20) (24) (41)
Elimination of intersegment earnings
 1
 1
 2
Consolidated income from operations$205
 $227
 $410
 $445

The following table presents the total assets of each reportable segment (in millions):
June 30,
2019
 December 30,
2018
In millionsQ1 2020 Q1 2019
Revenue:   
Core Illumina$6,973
 $6,912
$859
 $846
Helix
 154

 1
Elimination of intersegment assets
 (107)
Consolidated total assets$6,973
 $6,959
Elimination of intersegment revenue
 (1)
Consolidated revenue$859
 $846
   
Income (loss) from operations:   
Core Illumina$189
 $221
Helix
 (18)
Elimination of intersegment earnings
 1
Consolidated income from operations$189
 $204




Item 2. Management’s Discussion and Analysis
21

Table of Financial Condition and Results of Operations.Contents


MANAGEMENT’S DISCUSSION & ANALYSIS

Our Management’s Discussion and Analysis of Financial Condition and Results of Operations (MD&A) will help readers understand our results of operations, financial condition, and cash flow. It is provided in addition to the accompanying condensed consolidated financial statements and notes. This MD&A is organized as follows:

BusinessManagement’s Overview and Outlook. High level discussion of our operating results and significant known trends that affect our business.

Results of Operations. Detailed discussion of our revenues and expenses.

Liquidity and Capital Resources. Discussion of key aspects of our condensed consolidated statements of cash flows, changes in our financial position, and our financial commitments.

Off-Balance Sheet Arrangements. We have no off-balance sheet arrangements.

Critical Accounting Policies and Estimates. Discussion of significant changes since our most recent Annual Report on Form 10-K that we believe are important to understanding the assumptions and judgments underlying our condensed consolidated financial statements.

Recent Accounting Pronouncements. Summary of recent accounting pronouncements applicable to our condensed consolidated financial statements.

Off-Balance Sheet Arrangements. We have no off-balance sheet arrangements.

Quantitative and Qualitative Disclosure About Market Risk. Discussion of our financial instruments’ exposure to market risk.

Our discussion of our results of operations, financial condition, and cash flow for Q1 2019 can be found in “Management’s Discussion and Analysis of Financial Condition and Results of Operations” within our filing of Form 10-Q for the fiscal quarter ended March 31, 2019.

This MD&A discussion contains forward-looking statements that involve risks and uncertainties. Please see “ConsiderationConsideration Regarding Forward-Looking Statements”Statements preceding Item 3the Condensed Consolidated Financial Statements section of this report for additional factors relating to such statements. This MD&A should be read in conjunction with our condensed consolidated financial statements and accompanying notes included in this report and our Annual Report on Form 10-K for the fiscal year ended December 30, 2018.29, 2019. Operating results are not necessarily indicative of results that may occur in future periods.

Business Overview and OutlookMANAGEMENT’S OVERVIEW AND OUTLOOK

This overview and outlook provides a high-level discussion of our operating results and significant known trends that affect our business. We believe that an understanding of these trends is important to understanding our financial results for the periods being reported herein as well as our future financial performance. This summary is not intended to be exhaustive, nor is it intended to be a substitute for the detailed discussion and analysis provided elsewhere in this report.

About Illumina

We have one reportable segment, Core Illumina, which relates to Illumina’s core operations. Prior to the Helix deconsolidation on April 25, 2019, our reportable segments included both Core Illumina and Helix.
 
Our focus on innovation has established us as the global leader in DNA sequencing and array-based technologies, serving customers in the research, clinical and applied markets. Our products are used for applications in the life sciences, oncology, reproductive health, agriculture and other emerging segments.

Our customers include a broad range of academic, government, pharmaceutical, biotechnology, and other leading institutions around the globe.

Our comprehensive line of products addresses the scale of experimentation and breadth of functional analysis to advance disease research, drug development, and the development of molecular tests. This portfolio of leading-edge sequencing and array-based solutions addresses a range of genomic complexity and throughput, enabling researchers and clinical practitioners to select the best solution for their scientific challenge.

On November 1, 2018, we entered into an Agreement and Plan of Merger to acquire Pacific Biosciences of California, Inc. (PacBio) for an all-cash price of approximately $1.2 billion (or $8.00 per share), subject to applicable regulatory approvals. We believe PacBio’s highly accurate long reads combined with our highly accurate and scalable short reads will provide researchers and clinicians with a more perfect view of the genome, enhancing their ability to make novel discoveries and broaden clinical utility across a range of applications. The transaction is now expected to close in Q4 2019. See note “3. Pending Acquisition” in Part I, Item 1 of this report for further details.

Our financial results have been, and will continue to be, impacted by several significant trends, which are described below. While these trends are important to understanding and evaluating our financial results, this discussion should be read in conjunction with our condensed consolidated financial statements and the notes thereto in Item 1, Part Iwithin the Condensed Consolidated Financial Statements section of this report, and the other transactions, events, and trends discussed in “Risk Factors” in Item 1A, Part IIRisk Factors” within the Other Key Information section of this report and Item 1A of our Annual Report on Form 10-K for the fiscal year ended December 30, 2018.report.

Financial Overview

The COVID-19 pandemic and international efforts to control its spread have significantly curtailed the movement of people, goods, and services worldwide, including in the regions in which we sell our products and services and conduct our business operations. We expect the COVID-19 pandemic to have a negative impact on our sales and our results of operations, the size and duration of which we are currently unable to predict. As such, we will provide an update on our quarterly results only, without discussion about our expectations for the rest of the year.

Consolidated financial highlights for the first half of 2019Q1 2020 included the following:

Revenue increased 4%2% during the first half of 2019Q1 2020 to $1,684$859 million compared to $1,612$846 million in the first half of 2018Q1 2019 primarily due to growth in sequencing consumables. We expectconsumables, partially offset by a decrease in microarray revenue and fewer shipments of our sequencing instruments, with the exception of our NextSeq 2000 platform, which launched in Q1 2020.

Gross profit as a percentage of revenue as(gross margin) was 72.1% in Q1 2020 compared to the prior year, to continue to69.1% in Q1 2019. The gross margin increase was driven primarily by an increase in 2019, although we are anticipating ongoing weaknesssequencing consumables as a percentage of total revenue, which generate higher gross margins, and an increase in the direct-to-consumer (DTC)revenue from development and licensing agreements. Our gross margin depends on many factors, including: market conditions that may impact our pricing; sales mix changes among consumables, instruments, and delayed timing of certain population genomics projects.services; product mix changes between established products and new products; excess and obsolete inventories; royalties; our cost structure for manufacturing operations relative to volume; and product support obligations.

Gross profit as a percentage of revenue (gross margin) was 68.7% in the first half of 2019 compared to 69.0% in the first half of 2018. The gross margin decrease was driven by lower volumes in our service business, partially offset by an increase in revenue from a non-recurring licensing agreement in Q1 2019.Our gross margin in future periods will depend on several factors, including: market conditions that may impact our pricing; sales mix changes among consumables, instruments, and services; product mix changes between established products and new products; excess and obsolete inventories; royalties; our cost structure for manufacturing operations relative to volume; and product support obligations.

Income from operations as a percentage of revenue decreased to 24.3%was 22.0% in the first half of 2019Q1 2020 compared to 27.6%24.2% in the first half of 2018 primarilyQ1 2019. The decrease was due to increasedan increase in operating expenses as a percentage of revenue. We expect our operating expenses, as compared to the prior year, to continue to grow onrevenue offset partially by an absolute basisincrease in 2019. However, we are focused on reducing operating expenses in the second half of 2019 in response to lower revenue growth expectations.gross margin.

Our effective tax rate was 10.8%2.5% in the first half of 2019Q1 2020 compared to 12.3%3.9% in the first half of 2018.Q1 2019. In the first half of 2019,Q1 2020, the variance from the U.S. federal statutory tax rate of 21% was primarily attributable to discrete tax benefits related to the derivative assets recorded as a result of the terminated PacBio acquisition, the mix of earnings in jurisdictions with lower statutory tax rates than the U.S. federal statutory tax rate, such as in Singapore and the United Kingdom, a discrete tax benefit related to uncertain tax positions recorded in Q1 2019, and excess tax benefits related to share-based compensation.

We ended the first half of 2019Q1 2020 with cash, cash equivalents, and short-term investments totaling $3.2$3.3 billion as of June 30, 2019,March 29, 2020, of which approximately $476$798 million was held by our foreign subsidiaries.
 

Results of OperationsRESULTS OF OPERATIONS

To enhance comparability, the following table sets forth unaudited condensed consolidated statement of operations data for the specified reporting periods, stated as a percentage of total revenue.
 Q2 2019 Q2 2018 YTD 2019 YTD 2018
Revenue:       
Product revenue84.0 % 81.1 % 81.5 % 80.7 %
Service and other revenue16.0
 18.9
 18.5
 19.3
Total revenue100.0
 100.0
 100.0
 100.0
Cost of revenue:       
Cost of product revenue23.4
 21.8
 22.4
 22.0
Cost of service and other revenue7.0
 7.8
 7.8
 7.9
Amortization of acquired intangible assets1.2
 1.1
 1.1
 1.1
Total cost of revenue31.6
 30.7
 31.3
 31.0
Gross profit68.4
 69.3
 68.7
 69.0
Operating expense:       
Research and development19.8
 18.2
 19.9
 17.9
Selling, general and administrative24.1
 23.7
 24.5
 23.5
Total operating expense43.9
 41.9
 44.4
 41.4
Income from operations24.5
 27.4
 24.3
 27.6
Other income (expense):       
Interest income2.4
 1.3
 2.6
 1.0
Interest expense(1.8) (1.3) (1.8) (1.4)
Other income, net16.2
 0.6
 9.3
 0.9
Total other income, net16.8
 0.6
 10.1
 0.5
Income before income taxes41.3
 28.0
 34.4
 28.1
Provision for income taxes6.3
 3.9
 3.7
 3.5
Consolidated net income35.0
 24.1
 30.7
 24.6
Add: Net loss attributable to noncontrolling interests0.3
 1.1
 0.7
 1.3
Net income attributable to Illumina stockholders35.3 % 25.2 % 31.4 % 25.9 %
 Q1 2020 Q1 2019
Revenue:   
Product revenue81.6 % 78.8 %
Service and other revenue18.4
 21.2

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Total revenue100.0
 100.0
Cost of revenue:   
Cost of product revenue20.3
 21.5
Cost of service and other revenue6.8
 8.3
Amortization of acquired intangible assets0.8
 1.1
Total cost of revenue27.9
 30.9
Gross profit72.1
 69.1
Operating expense:   
Research and development18.2
 20.0
Selling, general and administrative31.9
 24.9
Total operating expense50.1
 44.9
Income from operations22.0
 24.2
Other (expense) income:   
Interest income1.6
 2.7
Interest expense(1.3) (1.8)
Other (expense) income, net(1.6) 2.5
Total other (expense) income, net(1.3) 3.4
Income before income taxes20.7
 27.6
Provision for income taxes0.6
 1.1
Consolidated net income20.1
 26.5
Add: Net loss attributable to noncontrolling interests
 1.0
Net income attributable to Illumina stockholders20.1 % 27.5 %
Percentages may not recalculate due to rounding

Our fiscal year is the 52 or 53 weeks ending the Sunday closest to December 31, with quarters of 13 or 14 weeks ending the Sunday closest to March 31, June 30, September 30, and December 31. The three and six monththree-month periods ended June 30,March 29, 2020 and March 31, 2019 and July 1, 2018 were both 13 and 26 weeks, respectively.weeks.


Revenue 
(Dollars in millions)Q2 2019 Q2 2018 Change % Change YTD 2019 YTD 2018 Change % Change
Dollars in millionsQ1 2020 Q1 2019 Change % Change
Consumables$571
 $545
 $26
 5 % $1,127
 $1,055
 $72
 7 %$620
 $556
 $64
 12 %
Instruments133
 128
 5
 4
 245
 246
 (1) 
81
 111
 (30) (27)
Total product revenue704
 673
 31
 5
 1,372
 1,301
 71
 5
701
 667
 34
 5
Service and other revenue134
 157
 (23) (15) 312
 311
 1
 
158
 179
 (21) (12)
Total revenue$838
 $830
 $8
 1 % $1,684
 $1,612
 $72
 4 %$859
 $846
 $13
 2 %

Service and other revenue primarily consists primarily of revenue generated from genotyping and sequencing and genotyping service revenue as well asservices, instrument service contract revenue.contracts, and development and licensing agreements. Total revenue relates primarily to Core Illumina for all periods presented.


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The increasesincrease in consumables revenue in Q2 2019 and the first half of 2019 wereQ1 2020 was primarily due to increases in sequencing consumables revenue of $37$72 million, and $96 million, respectively, driven primarily by growth in theinstrument installed base. The increasesincrease in sequencing consumables revenue werewas partially offset by decreasesa decrease in microarray consumables revenue primarily due to ongoing weakness in the direct-to-consumer (DTC) market. Instruments revenueincreased decreased in Q2 2019,Q1 2020 primarily due to increaseda $26 million decrease in sequencing instruments revenue, which was driven by decreased shipments to our customers impacted by the effects of NextSeq. Instruments revenue remained relatively flat in the first half of 2019, primarily due toCOVID-19 pandemic. We experienced fewer shipments across our portfolio, with the timing of NovaSeq shipments offsetting the increased shipmentsexception of our NextSeq instruments.2000 platform, which launched in Q1 2020. Service and other revenue decreased in Q2 2019,Q1 2020, primarily due to decreased revenue from genotyping services, which reflects ongoing weakness in the DTC market, and decreased sequencing services revenue. Service and otherpartially offset by increased revenue was relatively flat in the first half of 2019, primarily due to increasedfrom licensing and co-development revenue offsetting the decreased revenue from genotyping and sequencing services.development agreements.

Gross Margin
(Dollars in millions)Q2 2019 Q2 2018 Change % Change YTD 2019 YTD 2018 Change % Change
Dollars in millionsQ1 2020 Q1 2019 Change % Change
Gross profit$573
 $575
 $(2) —% $1,157
 $1,113
 $44
 4%$619
 $584
 $35
 6%
Gross margin68.4% 69.3%   68.7% 69.0%   72.1% 69.1%   

The gross margin decreasesincrease in Q2 2019 and the first half of 2019 wereQ1 2020 was driven primarily due to lower volumesby an increase in our service business. The decreases were partially offset by a more favorable mix of sequencing consumables and services in Q2 2019 and, in the first halfas a percentage of 2019,total revenue, which generate higher gross margins, and an increase in revenue from a non-recurringdevelopment and licensing agreement in Q1 2019.agreements.

Operating Expense
(Dollars in millions)Q2 2019 Q2 2018 Change % Change YTD 2019 YTD 2018 Change % Change
Dollars in millionsQ1 2020 Q1 2019 Change % Change
Research and development$166
 $151
 $15
 10% $335
 $288
 $47
 16%$156
 $169
 $(13) (8)%
Selling, general and administrative202
 197
 5
 3
 412
 380
 32
 8
274
 211
 63
 30
Total operating expense$368
 $348
 $20
 6% $747
 $668
 $79
 12%$430
 $380
 $50
 13 %

Core Illumina R&D expense increaseddecreased by $20$6 million, or 14%,4% in Q2 2019 and by $52 million, or 19%, in the first half of 2019,Q1 2020, primarily due to increased headcountas we continue to invest in the research and development of new products and enhancements to existing products, partially offset by a decrease in performance-based compensation.outside services. Helix R&D expense decreased by $5$7 million in Q2 2019 and the first half of 2019, primarilyQ1 2020, due to its deconsolidation on April 25, 2019.


Core Illumina SG&A expense increased by $11$69 million, or 6%34%, in Q2 2019, and by $40 million, or 11%, in the first half of 2019,Q1 2020, primarily due to expenses related to the pending Pacific Biosciences acquisition, increased headcount,Reverse Termination Fee and investment in facilitiesContinuation Advances paid to support the continued growth and scale of our operations,PacBio, partially offset by a decrease in performance-based compensation.other compensation related expenses. Helix SG&A expense decreased by $6 million in Q2 2019 and by $8 million in the first half of 2019, primarilyQ1 2020, due to its deconsolidation on April 25, 2019.

Other (Expense) Income, Net
(Dollars in millions)Q2 2019 Q2 2018 Change % Change YTD 2019 YTD 2018 Change % Change
Interest income$20
 $11
 $9
 82% $43
 $16
 $27
 169%
Interest expense(15) (11) (4) 36
 (30) (22) (8) 36
Other income, net136
 5
 131
 2,620
 157
 14
 143
 1,021
Total other income, net$141
 $5
 $136
 2,720% $170
 $8
 $162
 2,025%
Dollars in millionsQ1 2020 Q1 2019 Change % Change
Interest income$14
 $23
 $(9) (39)%
Interest expense(11) (15) 4
 (27)
Other (expense) income, net(14) 21
 (35) (167)
Total other (expense) income, net$(11) $29
 $(40) (138)%

Other (expense) income net relates primarily to Core Illumina for all periods presented.

Interest income increaseddecreased in Q2 2019 and in the first half of 2019Q1 2020 as a result of higherlower yields on our short-term debt securities and higher cash and cash-equivalent balances.securities. Interest expense consisted primarily of accretion of discount on our convertible senior notes and increasednotes. The fluctuations in Q2 2019 and the first half of 2019other (expense) income, net were primarily due to the 2023 Notes issued in August 2018. Other income, net, increased in Q2 2019 and in the first half of 2019 primarily due to mark-to-market adjustments from our strategic investments, which included a $92 million unrealized gain from a strategic investment that completed an initial public offering in Q2 2019. The increase in other income, net was also due to a $39 million gain recorded on the deconsolidation of Helix in Q2 2019 and a $15 million gain recorded in Q1 2019 from the settlement of a contingency related to the deconsolidation of GRAIL in 2017.2017, and fair value adjustments related to our investments, derivative assets related to the terminated PacBio acquisition, and contingent value right received from Helix.


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Provision for Income Taxes
(Dollars in millions)Q2 2019 Q2 2018 Change % Change YTD 2019 YTD 2018 Change % Change
Dollars in millionsQ1 2020 Q1 2019 Change % Change
Income before income taxes$346
 $232
 $114
 49% $580
 $453
 $127
 28%$178
 $233
 $(55) (24)%
Provision for income taxes53
 32
 21
 66
 63
 56
 7
 13
5
 9
 (4) (44)
Consolidated net income$293
 $200
 $93
 47% $517
 $397
 $120
 30%$173
 $224
 $(51) (23)%
Effective tax rate15.4% 13.9%     10.8% 12.3%    2.5% 3.9%    

Our effective tax rate was 15.4%2.5% for Q2 2019Q1 2020 compared to 13.9%3.9% in Q2 2018.Q1 2019. The variancesvariance from the U.S. federal statutory tax rate of 21% in Q2 2019 and Q2 2018 wereQ1 2020 was primarily attributable to discrete tax benefits related to the derivative assets recorded as a result of the terminated PacBio acquisition, the mix of earnings in jurisdictions with lower statutory tax rates than the U.S. federal statutory tax rate, such as in Singapore and the United Kingdom.

Our effectiveKingdom, and tax rate was 10.8% for the first half of 2019 comparedbenefits related to 12.3% for the first half of 2018.share-based compensation. For the first half ofQ1 2019, the variance from the U.S. federal statutory tax rate of 21% was primarily attributable to a discrete tax benefit related to uncertain tax positions, the mix of earnings in jurisdictions with lower statutory tax rates than the U.S. federal statutory tax rate, such as in Singapore and the UnitedKingdom, a discrete tax benefit related to uncertain tax positionsrecorded in Q1 2019, and excess tax benefits related to share-based compensation. For the first half of 2018, the variance from the U.S. federal statutory tax rate of 21% was primarily attributable to the mix of earnings in jurisdictions with lower statutory rates than the U.S. federal statutory rate, such as in Singapore and the United Kingdom, and the discrete benefit associated with the recognition of prior year losses from our investment in Helix.

Our future effective tax rate may vary from the U.S. federal statutory tax rate due to the mix of earnings in tax jurisdictions with different statutory tax rates and the other factors discussed in the risk factor “We are subject to risks related to taxation in multiple jurisdictions” described in Part I Item 1A“Risk Factors” within the Business and Market Information section of our Annual Report on Form 10-K for the fiscal year ended December 30, 2018.29, 2019. As a result of the Ninth Circuit decision on June 7, 2019 to overturn a U.S. Tax Court opinion provided in Q3 2015 that stock compensation should be excluded from cost sharing charges, we anticipate our effective tax rate may be adversely impacted. The final resolution of this case is uncertain, and we are still evaluating, but if it is determined that the outcome of this decision is more likely than not, we anticipate a discrete tax expense of less than $30 million could be recorded.


Liquidity and Capital ResourcesLIQUIDITY AND CAPITAL RESOURCES

At June 30, 2019,March 29, 2020, we had approximately $1.9$2.0 billion in cash and cash equivalents, of which approximately $476$798 million was held by our foreign subsidiaries. Cash and cash equivalents increaseddecreased by $0.8$0.1 billion from December 30, 2018,29, 2019, due to the factors described in the “Cash Flow Summary” below. Our primary source of liquidity, other than our holdings of cash, cash equivalents and investments, has been cash flows from operations and, from time to time, issuances of debt. Our ability to generate cash from operations provides us with the financial flexibility we need to meet operating, investing, and financing needs.
 
Historically, we have liquidated our short-term investments and/or issued debt and equity securities to finance our business needs as a supplement to cash provided by operating activities. As of June 30, 2019,March 29, 2020, we had $1.2$1.3 billion in short-term investments. Our short-term investments are predominantly comprised of marketable securities consisting of debt securities in U.S. government-sponsored entities, corporate debt securities, and U.S. Treasury securities.

Our 2019 Notes matured on June 15, 2019, by which time the $633 million in principal had been converted and was paid in cash. The excess of the conversion value over the principal amount was paid in shares of common stock. Our convertible senior notes due in 2021 and 2023 were not convertible as of June 30, 2019.March 29, 2020. During Q1 2020, the carrying value of the 2021 Notes was reclassified to short-term as they become convertible within twelve months of the balance sheet date.

We anticipate that our current cash, cash equivalents, and short-term investments, together with cash provided by operating activities are sufficient to fund our near-term capital and operating needs for at least the next 12 months including the pending acquisition of PacBio for a cash price of approximately $1.2 billion.months. Operating needs include the planned costs to operate our business, including amounts required to fund working capital and capital expenditures. Our primary short-term needs for capital, which are subject to change, include:
support of commercialization efforts related to our current and future products, including expansion of our direct sales force and field support resources both in the United States and abroad;products;
acquisitions of equipment and other fixed assets for use in our current and future manufacturing and research and development facilities;
the continued advancement of research and development efforts;
potential strategic acquisitions and investments;
repayment of debt obligations;

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the expansion needs of our facilities, including costs of leasing and building out additional facilities; and
repurchases of our outstanding common stock.

On February 6, 2019,5, 2020, our Board of Directors authorized a new share repurchase program, which supersedes all prior and available repurchase authorizations, to repurchase $550$750 million of outstanding common stock. The repurchases may be

completed under a 10b5-1 plan or at management’s discretion. Authorizations to repurchase $488$563 million of our common stock remained available as of June 30, 2019.March 29, 2020.

We had $57$51 million and up to $160 million, respectively, remaining in our capital commitmentcommitments to atwo venture capital investment fundfunds as of June 30, 2019March 29, 2020 that isare callable through April 2026. In2026 and July 2019, we invested in a second venture capital investment fund with a maximum capital commitment of up to $160 million that is callable through July 2029.2029, respectively.

We expect that our revenue and the resulting operating income, as well as the status of each of our new product development programs, will significantly impact our cash management decisions.

Our future capital requirements and the adequacy of our available funds will depend on many factors, including:
our ability to successfully commercialize and further develop our technologies and create innovative products in our markets;
scientific progress in our research and development programs and the magnitude of those programs;
competing technological and market developments; and
the need to enter into collaborations with other companies or acquire other companies or technologies to enhance or complement our product and service offerings.

Cash Flow Summary
(In millions)YTD 2019 YTD 2018
Net cash provided by operating activities$341
 $550
Net cash provided by (used in) investing activities1,067
 (525)
Net cash (used in) provided by financing activities(609) 97
Effect of exchange rate changes on cash and cash equivalents
 (3)
Net increase in cash and cash equivalents$799
 $119
In millionsQ1 2020 Q1 2019
Net cash provided by operating activities$281
 $198
Net cash (used in) provided by investing activities(135) 988
Net cash used in financing activities(191) (60)
Effect of exchange rate changes on cash and cash equivalents(6) 
Net (decrease) increase in cash and cash equivalents$(51) $1,126

Operating Activities

Net cash provided by operating activities in the first half of 2019Q1 2020 primarily consisted of net income of $517$173 million lessplus net adjustments of $19$154 million, andpartially offset by net changes in operating assets and liabilities of $157$46 million. The primary adjustments to net income included a loss on derivative assets related to a terminated acquisition of $95 million, depreciation and amortization expenses of $44 million, share-based compensation of $39 million, and accretion of debt discount of $10 million, partially offset by deferred income taxes of $29 million and unrealized gains on marketable equity securities of $104 million, payment of the accreted debt discount related to our 2019 Notes of $84 million, and gains on deconsolidation of $54 million, partially offset by share-based compensation of $99 million,depreciation and amortization expenses of $96 million, accretion of debt discount of $27 million, and deferred income taxes of $6$3 million. Cash flow impact from changes in net operating assets and liabilities were primarily driven by increases in inventory, prepaid expenses and other current assets, and other assets and decreases in accrued liabilities and accounts payable, and other long-term liabilities, partially offset by decreases in accounts receivable.

Net cash provided by operating activities in the first half of 2018 consisted of net income of $397 million plus net adjustments of $170 million, partially offset by net changes in operating assets and liabilities of $17 million. The primary adjustments to net income included depreciation and amortization expenses of $84 million, share-based compensation of $98 million, and accretion of debt discount of $16 million, partially offset by deferred income taxes of $22 million. Cash flow impact from changes in net operating assets and liabilities were primarily driven by an increase in inventory and a decrease in other long-term liabilities, partially offset by an increase in accrued liabilities and a decrease in accounts receivable.receivable and an increase in other long-term liabilities.

Investing Activities

Net cash provided byused in investing activities totaled $1,067$135 million in the first half of 2019.Q1 2020. We purchased $393$256 million of available-for-sale securities and $1,590$293 million of our available-for-sale securities matured or were sold during the period. We received $15paid $132 million for derivative assets, consisting of a $98 million Reverse Termination Fee and $34 million in proceeds fromContinuation Advances, associated with the settlementterminated acquisition of a contingency related to the deconsolidation of GRAIL in 2017.PacBio. We invested $103$40 million in capital expenditures, primarily associated with our investment in facilities and paid $13 million for strategic investments. We removed $29 million in cash from our balance sheet as a result of the deconsolidation of Helix.

Net cash used in investing activities in the first half of 2018 totaled $525 million. We purchased $1,137 million of available-for-sale securities and $888 million of our available-for-sale securities matured or were sold during the period. Our

net cash paid for acquisitions was $100 million, and we invested $167 million in capital expenditures, primarily associated with our investment in facilities..

Financing Activities


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Net cash used in financing activities in the first half of 2019Q1 2020 totaled $609$191 million. We used $550 million to repay financing obligations primarily related to our 2019 Notes. We used $63$188 million to repurchase our common stock, including commissions, and $26$35 million to pay taxes related to net share settlement of equity awards. We received $30$32 million in proceeds from the issuance of common stock through the exercise of stock options and the sale of shares under our employee stock purchase plan.
Net cash provided by financing activities in the first half of 2018 totaled $97 million. We received $22 million in proceeds from issuance of common stock through the exercise of stock options and the sale of shares under our employee stock purchase plan and contributions from noncontrolling interest owners were $92 million. We used $15 million to pay taxes related to net share settlementthe issuance of equity awards.common stock through the exercise of stock options.

Off-Balance Sheet Arrangements

We do not participate in any transactions that generate relationships with unconsolidated entities or financial partnerships, such as entities often referred to as structured finance or special purpose entities, which would have been established for the purpose of facilitating off-balance sheet arrangements or other contractually narrow or limited purposes. During the first half of 2019, we were not involved in any “off-balance sheet arrangements” within the meaning of the rules of the Securities and Exchange Commission.

Critical Accounting Policies and EstimatesCRITICAL ACCOUNTING POLICIES AND ESTIMATES

In preparing our condensed consolidated financial statements, we make estimates, assumptions and judgments that can have a significant impact on our net revenue, operating income and net income, as well as on the value of certain assets and liabilities on our balance sheet. We believe that the estimates, assumptions and judgments involved in the accounting policies described in “Critical Accounting Policies and Estimates” within the Management’s Discussion and& Analysis of Financial Condition and Results of Operations in Item 7section of our Annual Report on Form 10-K for the fiscal year ended December 30, 201829, 2019 have the greatest potential impact on our financial statements, so we consider them to be our critical accounting policies and estimates. Though the impact of the COVID-19 pandemic to our business and operating results presents additional uncertainty, we continue to use the best information available to inform our critical accounting estimates. There were no material changes to our critical accounting policies and estimates during the first half of 2019.Q1 2020.

Recent Accounting Pronouncements
RECENT ACCOUNTING PRONOUNCEMENTS

For summary of recent accounting pronouncements applicable to our condensed consolidated financial statements, see note “1. Summary of1. Organization and Significant Accounting Policies” in Part I, Item 1, Notes toPolicies” within the Condensed Consolidated Financial Statements section of this report, which is incorporated herein by reference.

Consideration Regarding Forward-Looking Statements
OFF-BALANCE SHEET ARRANGEMENTS

This Quarterly Report on Form 10-Q contains, and our officers and representatives may from timeWe do not participate in any transactions that generate relationships with unconsolidated entities or financial partnerships, such as entities often referred to time make, “forward-looking statements”as structured finance or special purpose entities, which would have been established for the purpose of facilitating off-balance sheet arrangements or other contractually narrow or limited purposes. During Q1 2020, we were not involved in any “off-balance sheet arrangements” within the meaning of the safe harbor provisionsrules of the U.S. Private Securities Litigation Reform Act of 1995.  Forward-looking statements can be identified by words such as: “anticipate,” “intend,” “plan,” “goal,” “seek,” “believe,” “continue,” “project,” “estimate,” “expect,” “strategy,” “future,” “likely,” “may,” “potential,” “predict,” should,” “will,” or similar words or phrases, or the negatives of these words, may identify forward-looking statements, but the absence of these words does not necessarily mean that a statement is not forward looking.  Examples of forward-looking statements include, among others, statements we make regarding:
our expectations as to our future financial performance, results of operations, cash flows or other operational results or metrics;
our expectations regarding the launch of new products or services;
the benefits that we expect will result from our business activities and certain transactions we have completed, such as product introductions, increased revenue, decreased expenses, and avoided expenses and expenditures;
our expectations of the effect on our financial condition of claims, litigation, contingent liabilities, and governmental investigations, proceedings, and regulations;
our strategies or expectations for product development, market position, financial results, and reserves;

our expectations regarding the integration of any acquired technologies with our existing technology; and
other expectations, beliefs, plans, strategies, anticipated developments, and other matters that are not historical facts.

Forward-looking statements are neither historical facts nor assurances of future performance.  Instead, they are based only on our current beliefs, expectations, and assumptions regarding the future of our business, future plans and strategies, projections, anticipated events and trends, the economy, and other future conditions.  Because forward-looking statements relate to the future, they are subject to inherent uncertainties, risks, and changes in circumstances that are difficult to predict and many of which are outside of our control.  Our actual results and financial condition may differ materially from those indicated in the forward-looking statements.  Therefore, you should not rely on any of these forward-looking statements.  Important factors that could cause our actual results and financial condition to differ materially from those indicated in the forward-looking statements include, among others, the following:
our expectations and beliefs regarding prospects and growth for our business and the markets in which we operate;
the timing and mix of customer orders among our products and services;
challenges inherent in developing, manufacturing, and launching new products and services, including expanding manufacturing operations and reliance on third-party suppliers for critical components;
the impact of recently launched or pre-announced products and services on existing products and services;
our ability to develop and commercialize our instruments and consumables, to deploy new products, services, and applications, and to expand the markets for our technology platforms;
our ability to manufacture robust instrumentation and consumables;
our ability to identify and integrate acquired technologies, products, or businesses successfully;
our expectations regarding the pending acquisition of Pacific Biosciences of California, Inc.;
the assumptions underlying our critical accounting policies and estimates;
our assessments and estimates that determine our effective tax rate;
our assessments and beliefs regarding the outcome of pending legal proceedings and any liability, that we may incur as a result of those proceedings;
uncertainty, or adverse economic and business conditions, including as a result of slowing or uncertain economic growth in the United States or worldwide; and
other factors detailed in our filings with the SEC, including the risks, uncertainties, and assumptions described in Item 1A of our Annual Report on Form 10-K for the fiscal year ended December 30, 2018, or in information disclosed in public conference calls, the date and time of which are released beforehand.

The foregoing factors should be considered together with other factors detailed in our filings with the Securities and Exchange Commission, including our most recent filings on Forms 10-K and 10-Q, or in information disclosed in public conference calls, the date and time of which are released beforehand.  We undertake no obligation, and do not intend, to publicly update any forward-looking statement, whether written or oral, that may be made from time to time, or to review or confirm analysts’ expectations, or to provide interim reports or updates on the progress of any current financial quarter, in each case whether as a result of new information, future developments, or otherwise.Commission.

Item 3. Quantitative and Qualitative Disclosures About Market Risk.QUANTITATIVE AND QUALITATIVE DISCLOSURE ABOUT MARKET RISK

There were no substantial changes to our market risks in the six months ended June 30, 2019,Q1 2020, when compared to the disclosures in Item 7A”Quantitative and Qualitative Disclosures about Market Risk” within the Management’s Discussion & Analysis section of our Annual Report on Form 10-K for the fiscal year ended December 30, 201829, 2019..

Item 4. Controls and Procedures.
OTHER KEY INFORMATION

CONTROLS AND PROCEDURES

We design our internal controls to provide reasonable assurance that (1) our transactions are properly authorized; (2) our assets are safeguarded against unauthorized or improper use; and (3) our transactions are properly recorded and reported in conformity with U.S. generally accepted accounting principles. We also maintain internal controls and procedures to ensure that we comply with applicable laws and our established financial policies.


Based on management’s evaluation (under the supervision and with the participation of our chief executive officer (CEO) and chief financial officer (CFO)), as of the end of the period covered by this report, our CEO and CFO concluded that our disclosure controls and procedures (as defined in Rules 13a-15(e) and 15d-15(e) under the Securities Exchange Act of 1934, as amended (the “Exchange Act”)), are effective to provide reasonable assurance that information required to be disclosed by us in reports that we file or submit under the Exchange Act is recorded, processed, summarized, and reported within the time periods specified in SEC rules and forms, and is accumulated and communicated to management, including our principal executive officer and principal financial officer, as appropriate, to allow timely decisions regarding required disclosure.


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During Q2 2019,Q1 2020, we continued to monitor and evaluate the design and operating effectiveness of key controls.controls, including the impact of the COVID-19 pandemic on our internal control environment. There were no changes in our internal control over financial reporting (as defined in Rules 13a-15(f) and 15d-15(f) of the Exchange Act) that materially affected or are reasonably likely to materially affect internal control over financial reporting.


PART II — OTHER INFORMATION
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Item 1. Legal Proceedings.LEGAL PROCEEDINGS

See discussion of legal proceedings in note “7.7. Legal Proceedings”Proceedings in Part I, Item 1, Notes tothe Condensed Consolidated Financial Statements section of this report, which is incorporated herein by reference.

Item 1A. Risk Factors.RISK FACTORS

Our business is subject to various risks, including those described in Item 1A“Risk Factors” within the Business and Market Information Section of our Annual Report on Form 10-K for the fiscal year ended December 30, 2018,29, 2019, which we strongly encourage you to review. There have been no material changes fromIn addition to the risk factors disclosed in Item 1A of our Form 10-K., the issues raised in the following risk factor could adversely affect our operating results and stock price:

We are unable to predict the extent to which the COVID-19 pandemic will adversely impact our business operations and financial performance.

The COVID-19 pandemic caused by the SARS-CoV-2 virus and international efforts to control its spread have significantly curtailed the movement of people, goods and services worldwide, including in the regions in which we sell our products and services and conduct our business operations. The magnitude and duration of the resulting decline in business activity cannot currently be estimated with any degree of certainty and will (1) negatively impact the demand for our products and services, (2) restrict our sales operations, marketing efforts, and customer field support, (3) impede the shipping and delivery of our products to customers (4) disrupt our supply chain, and (5) limit our ability to conduct research and product development and other important business activities. For example, in response to the COVID-19 pandemic, certain industry and customer events have been canceled, postponed or moved to virtual-only experiences, and we may further alter, postpone or cancel additional customer, employee or industry events in the future; we are requiring most of our employees to work remotely; and we may incur increased costs and experience delays in sales, purchases, deliveries and other business activities associated with the invocation by customers, suppliers, service providers, and other business partners of contractual provisions they may claim are triggered by the COVID-19 pandemic. We expect the COVID-19 pandemic to have a negative impact on our sales and our results of operations, the size and duration of which we are currently unable to predict. Additionally, concerns over the economic impact of the COVID-19 pandemic have caused extreme volatility in financial and other capital markets which may adversely impact the fair value of our marketable securities.

Item 2. Unregistered SalesSHARE REPURCHASES AND SALES

Purchases of Equity Securities and Use of Proceeds.by the Issuer

On February 5, 2020, our Board of Directors authorized a share repurchase program, which superseded all prior and available repurchase authorizations, to repurchase $750 million of outstanding common stock. The repurchases may be completed under a 10b5-1 plan or at management’s discretion. Shares repurchased in open-market transactions pursuant to this program during Q1 2020 were as follows:
In thousands, except price per share
 

Total Number
of Shares
Purchased
  

Average Price
Paid per Share
 Total Number of
Shares Purchased as
Part of Publicly
Announced Programs
 Approximate Dollar
Value of Shares
that May Yet Be
Purchased Under
the Programs
December 30, 2019 - January 26, 2020
 
 
 $750,000
January 27, 2020 - February 23, 2020236
 $296.78
 236
 $680,002
February 24, 2020 - March 29, 2020424
 $277.01
 424
 $562,500
Total660
 $284.08
 660
 $562,500

Unregistered Sales of Equity Securities

None during the quarterly period ended June 30, 2019.March 29, 2020.

Purchases
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None during the quarterly period ended June 30, 2019.

Item 3. Defaults Upon Senior Securities.

None.

Item 4. Mine Safety Disclosures.

Not applicable.

Item 5. Other Information.

None.

Item 6. Exhibits.EXHIBITS
 
Exhibit Number  Description of Document
  
31.1  Amended and Restated Certificate of Incorporation (June 2019)
Certification of Francis A. deSouza pursuant to Section 302 of the Sarbanes-Oxley Act of 2002.
  
  
  
  
  
  
  
101.INS  XBRL Instance Document - the instance document does not appear in the Interactive Data File because its XBRL tags are embedded within the Inline XBRL document
  
101.SCH  XBRL Taxonomy Extension Schema
  
101.CAL  XBRL Taxonomy Extension Calculation Linkbase
  
101.LAB  XBRL Taxonomy Extension Label Linkbase
  
101.PRE  XBRL Taxonomy Extension Presentation Linkbase
  
101.DEF  XBRL Taxonomy Extension Definition Linkbase
104Cover Page Interactive Data File - formatted in Inline XBRL and included as Exhibit 101



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FORM 10-Q CROSS-REFERENCE INDEX
Page
PART I. FINANCIAL INFORMATION
PART II. OTHER INFORMATION
Item 3. Defaults Upon Senior SecuritiesNone
Item 4. Mine Safety DisclosuresNot Applicable
Item 5. Other InformationNone


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SIGNATURES
Pursuant to the requirements of the Securities Exchange Act of 1934, the registrant has duly caused this report to be signed on its behalf by the undersigned thereunto duly authorized.
 
 
ILLUMINA, INC.
(registrant)
   
Date: JulyApril 30, 20192020 
/s/ SAM A. SAMAD
   
Sam A. Samad
Senior Vice President and Chief Financial Officer


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