UNITED STATES

SECURITIES AND EXCHANGE COMMISSION

Washington, D.C. 20549

FORM 10-Q



þ	Quarterly Report Pursuant to Section 13 or 15(d) of the Securities Exchange Act of 1934

For the Quarterly Period Ended ~~October~~April 1, ~~2017~~2018



¨	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

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)

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 þ No ¨

Indicate by check mark whether the registrant has submitted electronically and posted on its corporate Web site, if any, every Interactive Data File required to be submitted and posted 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 and post such files). Yes þ No ¨

Indicate by check mark whether the registrant is a large accelerated filer, an accelerated filer, a non-accelerated filer, or a smaller reporting company. See the definitions of “large accelerated filer,” “accelerated filer” and “smaller reporting company” in Rule 12b-2 of the Exchange Act.



Large accelerated filer	þ		Accelerated filer	¨

Non-accelerated filer	¨	(Do not check if a smaller reporting company)	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. o

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 ~~October~~April 20, ~~2017,~~2018, there were ~~146~~147 million shares of the registrant’s common stock outstanding.

Table of Contents

ILLUMINA, INC.

INDEX



	Page
PART I. FINANCIAL INFORMATION
Item 1. Financial Statements	3
Condensed Consolidated Balance Sheets	3
Condensed Consolidated Statements of Income	4
Condensed Consolidated Statements of Comprehensive Income	5
Condensed Consolidated Statement of Stockholders’ Equity	6
Condensed Consolidated Statements of Cash Flows	7
Notes to Condensed Consolidated Financial Statements	8
Item 2. Management’s Discussion and Analysis of Financial Condition and Results of Operations	21
Item 3. Quantitative and Qualitative Disclosures About Market Risk	2928
Item 4. Controls and Procedures	2928
PART II. OTHER INFORMATION
Item 1. Legal Proceedings	3029
Item 1A. Risk Factors	3029
Item 2. Unregistered Sales of Equity Securities and Use of Proceeds	3029
Item 3. Defaults Upon Senior Securities	3029
Item 4. Mine Safety Disclosures	3129
Item 5. Other Information	3129
Item 6. Exhibits	3130
SIGNATURES	3231

PART I. FINANCIAL INFORMATION

Item 1. Financial Statements.

ILLUMINA, INC.

CONDENSED CONSOLIDATED BALANCE SHEETS

(In millions)


	October 1, 2017			January 1, 2017			April 1, 2018			December 31, 2017
	(Unaudited)						(Unaudited)
ASSETS
Current assets:
Cash and cash equivalents	$	1,354		$	735		$	1,560		$	1,225
Short-term investments	687			824			813			920
Accounts receivable, net	383			381			400			411
Inventory	327			300			350			333
Prepaid expenses and other current assets	54			78			71			91
Total current assets	2,805			2,318			3,194			2,980
Property and equipment, net	862			713			983			931
Goodwill	771			776			775			771
Intangible assets, net	185			243			168			175
Deferred tax assets	117			123			100			88
Other assets	306			108			322			312
Total assets	$	5,046		$	4,281		$	5,542		$	5,257
LIABILITIES AND STOCKHOLDERS’ EQUITY
Current liabilities:
Accounts payable	$	158		$	138		$	151		$	160
Accrued liabilities	381			342			388			432
Build-to-suit lease liability	124			223			21			144
Long-term debt, current portion	2			2			620			10
Total current liabilities	665			705			1,180			746
Long-term debt	1,180			1,056			710			1,182
Other long-term liabilities	222			206			364			360
Redeemable noncontrolling interests	124			44			215			220
Stockholders’ equity:
Common stock	2			2			2			2
Additional paid-in capital	2,891			2,733			2,897			2,833
Accumulated other comprehensive loss	—			(1		)	(1		)	(1		)
Retained earnings	2,188			1,485			2,464			2,256
Treasury stock, at cost	(2,226		)	(2,022		)	(2,354		)	(2,341		)
Total Illumina stockholders’ equity	2,855			2,197			3,008			2,749
Noncontrolling interests	—			73			65			—
Total stockholders’ equity	2,855			2,270			3,073			2,749
Total liabilities and stockholders’ equity	$	5,046		$	4,281		$	5,542		$	5,257

See accompanying notes to the condensed consolidated financial statements.

ILLUMINA, INC.

CONDENSED CONSOLIDATED STATEMENTS OF INCOME

(Unaudited)

(In millions, except per share amounts)


	Three Months Ended						Nine Months Ended						Three Months Ended
	October 1, 2017			October 2, 2016			October 1, 2017			October 2, 2016			April 1, 2018			April 2, 2017
Revenue:
Product revenue	$	596		$	514		$	1,631		$	1,506		$	628		$	491
Service and other revenue	118			93			344			273			154			107
Total revenue	714			607			1,975			1,779			782			598
Cost of revenue:
Cost of product revenue	173			132			508			383			174			166
Cost of service and other revenue	50			38			153			117			62			53
Amortization of acquired intangible assets	9			11			30			32			8			11
Total cost of revenue	232			181			691			532			244			230
Gross profit	482			426			1,284			1,247			538			368
Operating expense:
Research and development	134			126			409			374			137			145
Selling, general and administrative	167			139			499			438			183			171
Legal contingencies	—			—			—			(9		)
Total operating expense	301			265			908			803			320			316
Income from operations	181			161			376			444			218			52
Other income (expense):
Interest income	4			2			13			7			5			4
Interest expense	(10		)	(9		)	(26		)	(25		)	(11		)	(8		)
Other income, net	—			—			457			1			9			455
Total other (expense) income, net	(6		)	(7		)	444			(17		)
Total other income, net													3			451
Income before income taxes	175			154			820			427			221			503
Provision for income taxes	23			37			199			106			24			155
Consolidated net income	152			117			621			321			197			348
Add: Net loss attributable to noncontrolling interests	11			12			37			18			11			19
Net income attributable to Illumina stockholders	$	163		$	129		$	658		$	339		$	208		$	367
Net income attributable to Illumina stockholders for earnings per share	$	163		$	129		$	657		$	336		$	208		$	366
Earnings per share attributable to Illumina stockholders:
Basic	$	1.12		$	0.88		$	4.49		$	2.29		$	1.42		$	2.50
Diluted	$	1.11		$	0.87		$	4.45		$	2.27		$	1.41		$	2.48
Shares used in computing earnings per common share:
Shares used in computing earnings per share:
Basic	146			147			146			147			147			146
Diluted	148			148			148			148			148			147

See accompanying notes to the condensed consolidated financial statements.

ILLUMINA, INC.

CONDENSED CONSOLIDATED STATEMENTS OF COMPREHENSIVE INCOME

(Unaudited)

(In millions)

Three Months Ended Nine Months Ended
October 1,
2017 October 2,
2016 October 1,
2017 October 2,
2016
Consolidated net income $ 152
$ 117
$ 621
$ 321
Unrealized gain (loss) on available-for-sale securities, net of deferred tax 1
(1 ) 1
1
Total consolidated comprehensive income 153
116
622
322
Add: Comprehensive loss attributable to noncontrolling interests 11
12
37
18
Comprehensive income attributable to Illumina stockholders $ 164
$ 128
$ 659
$ 340



	Three Months Ended
	April 1, 2018		April 2, 2017
Total consolidated net income and comprehensive income	$	197	$	348
Add: Comprehensive loss attributable to noncontrolling interests	11		19
Comprehensive income attributable to Illumina stockholders	$	208	$	367

See accompanying notes to the condensed consolidated financial statements.

ILLUMINA, INC.

CONDENSED CONSOLIDATED STATEMENT OF STOCKHOLDERS’ EQUITY

(Unaudited)

(In millions)

Illumina Stockholders
Additional Accumulated Other Total
Common Paid-In Comprehensive Retained Treasury Noncontrolling Stockholders’
Stock Capital (Loss) Income Earnings Stock Interests Equity
Balance as of January 1, 2017 $ 2
$ 2,733
$ (1 ) $ 1,485
$ (2,022 ) $ 73
$ 2,270
Net income (loss) —
—
—
658
—
(7 ) 651
Unrealized gain on available-for-sale securities, net of deferred tax —
—
1
—
—
—
1
Issuance of common stock, net of repurchases —
63
—
—
(204 ) —
(141 )
Share-based compensation —
123
—
—
—
—
123
Adjustment to the carrying value of redeemable noncontrolling interests —
(30 ) —
—
—
—
(30 )
Vesting of redeemable equity awards —
(12 ) —
—
—
—
(12 )
Cumulative-effect adjustment from adoption of ASU 2016-09 —
3
—
45
—
—
48
Deconsolidation of GRAIL —
11
—
—
—
(66 ) (55 )
Balance as of October 1, 2017 $ 2
$ 2,891
$ —
$ 2,188
$ (2,226 ) $ —
$ 2,855



	Illumina Stockholders
			Additional			Accumulated Other											Total
	Common		Paid-In			Comprehensive			Retained		Treasury			Noncontrolling			Stockholders’
	Stock		Capital			Loss			Earnings		Stock			Interests			Equity
Balance as of December 31, 2017	$	2	$	2,833		$	(1	)	$	2,256	$	(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	—		—			—			—		—			5			5
Balance as of April 1, 2018	$	2	$	2,897		$	(1	)	$	2,464	$	(2,354	)	$	65		$	3,073

See accompanying notes to condensed consolidated financial statements.

ILLUMINA, INC.

CONDENSED CONSOLIDATED STATEMENTS OF CASH FLOWS

(Unaudited)

(In millions)


	Nine Months Ended						Three Months Ended
	October 1, 2017			October 2, 2016			April 1, 2018			April 2, 2017
Cash flows from operating activities:
Consolidated net income	$	621		$	321		$	197		$	348
Adjustments to reconcile net income to net cash provided by operating activities:
Gain on deconsolidation of GRAIL	(453		)	—			—			(453		)
Depreciation expense	81			65			30			26
Amortization of intangible assets	36			38			9			12
Share-based compensation expense	123			102			48			50
Accretion of debt discount	23			22			8			7
Deferred income taxes	53			58			(11		)	86
Impairment of intangible assets	23			—			—			23
Other	(2		)	5			(6		)	(2		)
Changes in operating assets and liabilities:
Accounts receivable	1			5			11			16
Inventory	(27		)	(42		)	(17		)	1
Prepaid expenses and other current assets	14			3			(2		)	2
Other assets	(3		)	(6		)	(1		)	(1		)
Accounts payable	12			(7		)	2			(3		)
Accrued liabilities	56			(57		)	(18		)	52
Other long-term liabilities	23			10			5			4
Net cash provided by operating activities	581			517			255			168
Cash flows from investing activities:
Purchases of available-for-sale securities	(359		)	(679		)	(598		)	(61		)
Sales of available-for-sale securities	314			406			288			40
Maturities of available-for-sale securities	181			148			415			48
Net cash paid for acquisitions	—			(18		)
Proceeds from sale of GRAIL securities	278			—			—			278
Deconsolidation of GRAIL cash	(52		)	—			—			(52		)
Net purchases of strategic investments	(25		)	(9		)	(3		)	(7		)
Purchases of property and equipment	(234		)	(178		)	(90		)	(83		)
Cash paid for intangible assets	(2		)	(11		)
Net cash provided by (used in) investing activities	101			(341		)
Net cash provided by investing activities							12			163
Cash flows from financing activities:
Payments on financing obligations	(7		)	(71		)	(2		)	(1		)
Payments on acquisition related contingent consideration liability	(3		)	(29		)
Proceeds from issuance of debt	5			5
Common stock repurchases	(176		)	(113		)	—			(101		)
Taxes paid related to net share settlement of equity awards	(28		)	(76		)	(13		)	(22		)
Proceeds from issuance of common stock	63			47			21			22
Proceeds from early exercise of equity awards from a subsidiary	—			6
Contributions from noncontrolling interest owners	79			80			61			16
Net cash used in financing activities	(67		)	(151		)
Net cash provided by (used in) financing activities							67			(86		)
Effect of exchange rate changes on cash and cash equivalents	4			1			1			1
Net increase in cash and cash equivalents	619			26			335			246
Cash and cash equivalents at beginning of period	735			769			1,225			735
Cash and cash equivalents at end of period	$	1,354		$	795		$	1,560		$	981

See accompanying notes to the condensed consolidated financial statements.

Illumina, Inc.

Notes to Condensed Consolidated Financial Statements

(Unaudited)

Unless the context requires otherwise, references in this report to “Illumina,” “we,” “us,” the “Company,” and “our” refer to Illumina, Inc. and its consolidated subsidiaries.

1. Basis of Presentation and Summary of Significant Accounting Policies

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 ~~Company’s~~ audited consolidated financial statements and footnotes included in the ~~Company’s~~ Annual Report on Form 10-K for the fiscal year ended ~~January 1,~~December 31, 2017, 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. Actual results could differ from those estimates.

The unaudited condensed consolidated financial statements include ~~the~~our accounts, ~~of the Company, its~~our wholly-owned subsidiaries, majority-owned or controlled companies, and variable interest entities (VIEs) for which ~~the Company is~~we are the primary beneficiary. All intercompany transactions and balances have been eliminated in consolidation. ~~Effective February 28, 2017, Illumina deconsolidated GRAIL, Inc.’s financial statements.~~ In management’s opinion, the accompanying financial statements reflect all adjustments, consisting of normal recurring adjustments, considered necessary for a fair presentation of the results for the interim periods presented.

~~The Company evaluates its~~We evaluate our ownership, contractual, and other interests in entities that are not wholly-owned ~~by the Company~~ to determine if these entities are VIEs, and, if so, whether ~~the Company is~~we are the primary beneficiary of the VIE. In determining whether ~~the Company is~~we are the primary beneficiary of a VIE and is therefore required to consolidate the VIE, ~~the Company applies~~ a qualitative approach is applied that determines whether ~~it has~~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. ~~The Company~~We continuously ~~assesses~~assess whether ~~it is~~we are the primary beneficiary of a VIE as changes to existing relationships or future transactions may result in the consolidation or deconsolidation ~~as the case may be,~~ of such VIE. ~~The Company has~~During the three months ended April 1, 2018, our consolidated VIE, Helix, received additional cash contributions from us and third-party investors in exchange for voting equity interests in Helix. Therefore, we reassessed and concluded that Helix continues to be a variable interest entity and that we remain the primary beneficiary. We have not provided financial or other support during the periods presented to ~~its~~our VIEs that ~~it was~~we were not previously contractually required to provide.

The equity method is used to account for investments in which ~~the Company has~~we have the ability to exercise significant influence, but not control, over the investee. Such investments are recorded within other assets, and the share of net income or losses of equity investments is recognized on a one quarter lag in other income, net.

Redeemable Noncontrolling Interests

Noncontrolling interests represent the portion of equity (net assets) in aour consolidated entity, Helix, that is not wholly-owned by ~~the Company~~us that is not attributable, directly or indirectly, to ~~the Company.~~us. Noncontrolling interests with embedded contingent redemption features, such as put rights, that are not solely within ~~the Company’s~~our control are considered redeemable noncontrolling interests. Redeemable noncontrolling interests are presented outside of stockholders’ equity on the condensed consolidated balance sheets.

Fiscal Year

~~The Company’s~~Our fiscal year ~~consists of~~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 nine~~ months ended ~~October~~April 1, ~~2017~~2018 and ~~October~~April 2, ~~2016~~2017 were both 13 ~~and 39 weeks, respectively.~~weeks.

Reclassifications

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

Significant Accounting Policies

During the three ~~and nine~~ months ended ~~October~~April 1, ~~2017,~~2018, there have been no changes to ~~the Company’s~~our significant accounting policies as described in ~~the~~our Annual Report on Form 10-K for the fiscal year ended ~~January 1, 2017.~~December 31, 2017, except as described below.

Recently Adopted Accounting Pronouncements

In ~~March 2016, the Financial Accounting Standards Board issued Accounting Standard Update (ASU) 2016-09,~~ ~~Compensation - Stock Compensation (Topic 718)~~, which aims to simplify the accounting for share-based payment transactions, including accounting for income taxes, classification on the statement of cash flows, accounting for forfeitures, and classification of awards as either liabilities or equity. This ASU was effective for the Company beginning in the first quarter of 2017.

Under the ASU, excess tax benefits from share-based payment arrangements are classified as discrete items within the provision for income taxes, rather than recognizing excess tax benefits in additional paid-in capital. Upon adoption in Q1 2017, the Company recorded $45 million, net, to retained earnings, primarily related to unrealized tax benefits associated with share-based compensation. During the three and nine months ended October 1, 2017, excess tax benefits of $12 million and $31 million, respectively, were reflected as a component of the provision for income taxes.

In addition, under the ASU, excess income tax benefits from share-based compensation arrangements are classified as cash flow from operations, rather than cash flow from financing activities. The Company has elected to apply the cash flow classification guidance retrospectively and reclassified $110 million from financing activity to operating activity for the nine months ended October 2, 2016.

~~Recently Issued Accounting Pronouncements~~

In May 2014, the ~~Financial Accounting Standards Board~~FASB issued ~~Accounting Standards Update (ASU)~~ASU 2014-09, Revenue from Contracts with Customers (Topic 606). The new standard is based on the principle that revenue should be recognized in an amount that reflects the consideration to which ~~the entity expects~~we expect to be entitled in exchange for the transfer of promised goods or services. Since its initial release, the FASB has issued several amendments to the standard, which include clarification of accounting guidance related to identification of performance obligations, intellectual property licenses, and principal vs. agent considerations.

~~ASU 2014-09 and all subsequent amendments (collectively, the “new standards”) will be effective for the Company beginning in the first quarter of 2018 and may be applied~~We adopted Topic 606 using ~~either the full retrospective method, in which case the standard would be applied to each prior reporting period presented, or~~ the modified retrospective ~~method, in which case the~~transition method. The cumulative effect of applying the new revenue standard ~~would be recognized at~~to all incomplete contracts as of January 1, 2018 was not material and, therefore, did not result in an adjustment to retained earnings. There was no material difference to the ~~date of initial application.~~

~~The Company continues~~consolidated financial statements for the period ended April 1, 2018 due to work through steps in the implementation project plan, which include: finalizing new disclosures required by the new standards and implementing changes to business processes and reporting in support of the adoption of Topic 606. Furthermore, we expect the new standards. The Company will adopt the new standards using the modified retrospective method with an adjustment to beginning retained earnings for the cumulative effect of the change, which is not expectedimpact to be ~~material.~~immaterial to our consolidated financial statements going forward.

In January 2016, the ~~Financial Accounting Standards Board~~FASB issued ASU 2016-01, Financial Instruments - Overall (Subtopic 825-10), which requires equity investments (other than those accounted for under the equity method or those that result in consolidation) to be measured at fair value, with changes in fair value recognized in net income. ~~ASU 2016-01 will be~~This standard was effective for ~~the Company~~us beginning in the first quarter of 2018. ~~The Company anticipates~~Based on our elections, our strategic equity investments that do not have readily determinable fair values and do not qualify for the ~~adoption of ASU 2016-01 may increase the volatility of other income and expense,~~ net ~~as a result~~asset value practical expedient for estimating fair value are measured at cost, less any impairments, plus or minus changes resulting from observable price changes in orderly transactions for identifiable or similar investments of the ~~remeasurement of the Company’s cost-method investments.~~same issuer. The measurement alternative was applied prospectively and did not result in an adjustment to retained earnings.

Recently Issued Accounting Pronouncements

In February 2016, the ~~Financial~~FASB issued Accounting ~~Standards Board issued ASU~~Standard Update (ASU) 2016-02, Leases (Topic 842). The new standard requires lessees to recognize most leases on their balance ~~sheets~~sheet as lease liabilities with corresponding right-of-use ~~assets and eliminates certain real estate-specific provisions.~~assets. ASU 2016-02 ~~will be~~is effective for ~~the Company~~us beginning in the first quarter of 2019. ~~ASU 2016-02~~Currently, the standard will be adopted on a modified retrospective transition basis for leases existing at, or entered into after, the beginning of the earliest comparative period presented in the financial statements. The ~~Company is~~FASB has proposed an alternative method to adopt the lease standard by recognizing a cumulative-effect adjustment to the opening balance of retained earnings in the period of adoption. While we are continuing to assess the effects of adoption, we believe the new standard will have a material effect on our consolidated financial statements and disclosures. We expect substantially all of our real-estate operating lease commitments will be recognized as lease liabilities with corresponding right-of-use assets upon adoption, resulting in a significant increase in the assets and liabilities on the consolidated balance sheet. We are currently evaluating the impact of ~~ASU 2016-02~~Topic 842 on ~~its~~the consolidated financial ~~statements.~~statements as it relates to other aspects of our business.

In June 2016, the FASB issued ~~ASU~~Accounting Standards Update (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 trade receivables and available for sale debt securities. The ~~ASU~~standard is effective for ~~the Company~~us beginning in the first quarter of 2020, with early adoption permitted. ~~The Company is~~We are currently evaluating the impact of ASU 2016-13 on ~~its~~the consolidated financial statements.

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 and instrument service contracts.

We recognize revenue when control of our products and services is transferred to our customers in an amount that reflects the consideration we expect to receive from our customers in exchange for those products and services. This process involves identifying the contract with 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. We recognize revenue for satisfied performance obligations only when we determine there are no uncertainties regarding payment terms or transfer of control.

Revenue from product sales is recognized generally upon delivery to the end customer, which is when control of the product is deemed to be transferred. Invoicing typically occurs upon shipment and the term between invoicing and when payment is due is not significant. In instances where right of payment or transfer of title is contingent upon 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 or agreed-upon milestones are reached.

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 would have been one year or less.

We regularly enter into contracts with multiple performance obligations. Such obligations are generally satisfied within a short time frame, approximately three to six months, after the contract execution date. Revenue recognition for contracts with multiple deliverables is based on the separate, distinct performance obligations within the contract. We do not disclose the value of unsatisfied performance obligations for (i) contracts with an original expected length of one year or less, and (ii) contracts for which we recognize revenue at the amount to which we have the right to invoice for services performed.

The contract price is allocated to each performance obligation in proportion to its stand-alone selling price. We determine our best estimate of stand-alone 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 our pricing committee, adjusted for applicable discounts.

Contract liabilities, which consists of deferred revenue and customer deposits, as of April 1, 2018 and December 31, 2017 were $184 million and $181 million, respectively, of which the short-term portions of $153 million and $150 million, respectively, were recorded in accrued liabilities and the remaining long-term portions were recorded in other long-term liabilities. Revenue recorded in the three months ended April 1, 2018 includes $68 million of previously deferred revenue that were included in contract liabilities as of December 31, 2017. Contract assets as of April 1, 2018 and December 31, 2017 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. 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
	April 1, 2018						April 2, 2017
	Sequencing		Microarray		Total		Sequencing		Microarray		Total
Consumables	$	417	$	87	$	504	$	318	$	69	$	387
Instruments	112		6		118		95		5		100
Other product	5		1		6		4		—		4
Total product revenue	534		94		628		417		74		491
Service and other	96		58		154		78		29		107
Total revenue	$	630	$	152	$	782	$	495	$	103	$	598

Revenue related to our Consolidated VIEs is included in sequencing services and other revenue.

The following table represents revenue by geographic area, based on region of destination (in millions):



	Three Months Ended
	April 1, 2018		April 2, 2017
United States	$	416	$	325
Europe	184		126
Greater China (1)	78		56
Asia-Pacific (1)	70		67
Other markets	34		24
Total revenue	$	782	$	598

(1) Revenue for the Greater China region, which consists of China, Taiwan, and Hong Kong, is reported separately from the Asia-Pacific region.

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. Per-share earnings of our VIEs are included in the ~~Company’s~~ consolidated basic and diluted earnings per share computations based on ~~the Company’s~~our share of the ~~VIEs’~~VIE’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 ~~the Company’s~~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. ~~In loss periods, basic net loss per share and diluted net loss per share are identical because the otherwise dilutive potential common shares become anti-dilutive and are therefore excluded.~~

The following ~~table presents~~is the calculation of weighted average shares used to calculate basic and diluted earnings per share (in millions):


	Three Months Ended		Nine Months Ended		Three Months Ended
	October 1, 2017	October 2, 2016	October 1, 2017	October 2, 2016	April 1, 2018	April 2, 2017
Weighted average shares outstanding	146	147	146	147	147	146
Effect of potentially dilutive common shares from:
Equity awards	2	1	2	1	1	1
Weighted average shares used in calculating diluted earnings per share	148	148	148	148	148	147
Potentially dilutive shares excluded from calculation due to anti-dilutive effect	—	—	—	1	—	1

2. Balance Sheet Account Details

Short-Term Investments

The following is a summary of short-term investments (in millions):


	October 1, 2017							January 1, 2017							April 1, 2018							December 31, 2017
	Amortized Cost		Gross Unrealized Losses			Estimated Fair Value		Amortized Cost		Gross Unrealized Losses			Estimated Fair Value		Amortized Cost		Gross Unrealized Losses			Estimated Fair Value		Amortized Cost		Gross Unrealized Losses			Estimated Fair Value
Available-for-sale securities:
Available-for-sale debt securities:
Debt securities in government sponsored entities	$	74	$	—		$	74	$	34	$	—		$	34	$	38	$	—		$	38	$	67	$	—		$	67
Corporate debt securities	343		(1		)	342		478		(2		)	476		375		(2		)	373		423		(2		)	421
U.S. Treasury securities	272		(1		)	271		316		(2		)	314		403		(1		)	402		433		(1		)	432
Total available-for-sale securities	$	689	$	(2	)	$	687	$	828	$	(4	)	$	824
Total available-for-sale debt securities															$	816	$	(3	)	$	813	$	923	$	(3	)	$	920

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 ~~October~~April 1, ~~2017~~2018 were as follows (in millions):


	Estimated Fair Value		Estimated Fair Value
Due within one year	$	421	$	353
After one but within five years	266		460
Total	$	687	$	813

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

Strategic Investments

The carrying amounts of our strategic equity investments without readily determinable fair values are initially measured at cost and are remeasured for impairment and observable price changes in orderly transactions for identifiable or similar investments of the same issuer.

As of ~~October~~April 1, ~~2017~~2018 and ~~January 1,~~December 31, 2017, the aggregate carrying amounts of ~~the Company’s cost-method~~our strategic equity investments ~~in non-publicly traded companies included in other assets~~without readily determinable fair values were$256 million and $250 million ~~and~~ ~~$57 million~~, ~~respectively.~~respectively, included in other assets. Revenue recognized from transactions with such companies ~~was $38 million and $96 million, respectively,~~ for the three ~~and nine~~ months ended ~~October~~April 1, 2018 and April 2, 2017 ~~and $12~~was $36 million and ~~$42~~$23 million, ~~respectively, for the three and nine months ended October 2, 2016.~~respectively.

The Company’s cost-method investments are assessed for impairment quarterly. The Company determines that it is not practicable to estimate the fair value of its cost-method investments on a regular basis and does not reassess the fair value of cost-method investments unless there are identified events or changes in circumstances that may have a significant adverse effect on the fair value of the investments. No ~~material impairment losses were recorded during the three and nine months ended~~ ~~October 1, 2017~~ or ~~October 2, 2016~~.

~~The Company invests~~We invest in a venture capital investment fund (the Fund) with a capital commitment of $100 million that is callable over ten ~~years. The Company’s~~years, of which $80 million remains as of April 1, 2018. Our investment in the Fund is accounted for as an ~~equity method~~equity-method investment. The carrying amounts of the Fund included in other assets were ~~$14~~$19 million and ~~$10~~$16 million as of ~~October~~April 1, ~~2017~~2018 and ~~January 1,~~December 31, 2017, respectively.

Inventory

Inventory consists of the following (in millions):


	October 1, 2017		January 1, 2017		April 1, 2018		December 31, 2017
Raw materials	$	90	$	102	$	95	$	93
Work in process	192		161		209		188
Finished goods	45		37		46		52
Total inventory	$	327	$	300	$	350	$	333

Property and Equipment

Property and equipment, net consists of the following (in millions):


	October 1, 2017			January 1, 2017			April 1, 2018			December 31, 2017
Leasehold improvements	$	320		$	270		$	477		$	331
Machinery and equipment	301			274			331			316
Computer hardware and software	178			156			207			185
Furniture and fixtures	34			24			40			34
Building	147			9
Buildings							269			155
Construction in progress	273			307			103			326
Total property and equipment, gross	1,253			1,040			1,427			1,347
Accumulated depreciation	(391		)	(327		)	(444		)	(416		)
Total property and equipment, net	$	862		$	713		$	983		$	931

Property and equipment, net included non-cash expenditures of ~~$94~~$33 million and ~~$194~~$60 million for the ~~nine~~three months ended ~~October~~April 1, ~~2017~~2018 and ~~October~~April 2, ~~2016,~~2017, respectively, which were excluded from the condensed consolidated statements of cash flows. Such non-cash expenditures included ~~$60~~$6 million and ~~$169~~$27 million recorded under build-to-suit lease accounting for the ~~nine~~three months ended ~~October~~April 1, ~~2017~~2018 and ~~October~~April 2, ~~2016,~~2017, respectively.

Intangible Assets and Goodwill

The Company tests the carrying value of goodwill in accordance with accounting rules on impairment of goodwill, which require the Company to estimate the fair value of the reporting unit annually, or when impairment indicators exist, and compare such amounts to their respective carrying values to determine if an impairment is required. The Company performed its annual assessment for goodwill impairment in the second quarter of 2017, noting no impairment.

Changes to ~~the Company’s~~ goodwill ~~balance~~ during the ~~nine~~three months ended ~~October~~April 1, ~~2017~~2018 are as follows (in millions):

Goodwill
Balance as of January 1, 2017 $ 776
GRAIL deconsolidation (5 )
Balance as of October 1, 2017 $ 771



	Goodwill
Balance as of December 31, 2018	$	771
Current period acquisition	4
Balance as of April 1, 2018	$	775

~~The Company regularly performs~~We perform regular reviews to determine if any event has occurred that may indicate ~~its~~our identifiable intangible assets are potentially impaired. During the ~~nine~~three months ended ~~October 1,~~April 2, 2017, ~~the Company~~we performed a recoverability test when the planned use of a finite-lived acquired intangible asset changed, resulting in an impairment charge of $18 million recorded in cost of product revenue. Also during the ~~nine~~three months ended ~~October 1,~~April 2, 2017, ~~the Company~~we recorded a $5 million impairment charge ofin research and development related to an in-process research and development ~~as it~~project that was determined ~~the project had~~to have no future alternative use.

Derivatives

~~The Company is~~We are exposed to foreign exchange rate risks in the normal course of business. ~~The Company enters~~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 ~~other~~accrued liabilities and are not designated as hedging instruments. Changes in the value of derivatives are recognized in other income, net, along with the remeasurement gain or loss on the foreign currency denominated assets or liabilities.

As of ~~October~~April 1, ~~2017, the Company~~2018, we had foreign exchange forward contracts in place to hedge exposures in the euro, Japanese yen, Australian dollar, and Canadian dollar. As of ~~October~~April 1, ~~2017~~2018 and ~~January 1,~~December 31, 2017, the total notional amounts of outstanding forward contracts in place for foreign currency purchases were ~~$79~~$113 million and ~~$69~~$88 million, respectively.

Accrued Liabilities

Accrued liabilities consist of the following (in millions):


	October 1, 2017		January 1, 2017		April 1, 2018		December 31, 2017
Contract liabilities, current portion					$	153	$	150
Accrued compensation expenses	$	138	$	112	125		177
Deferred revenue, current portion	131		121
Accrued taxes payable	41		32		59		50
Customer deposits	18		20
Other	53		57		51		55
Total accrued liabilities	$	381	$	342	$	388	$	432

Warranties

~~The Company~~We generally ~~provides~~provide a one-year warranty on instruments. Additionally, ~~the Company provides~~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, ~~the Company establishes~~ an accrual is established for estimated warranty expenses based on historical experience as well as anticipated product performance. ~~The Company~~We periodically ~~reviews its~~review the warranty reserve for adequacy and ~~adjusts~~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.

Changes in the ~~Company’s~~ reserve for product warranties during the three ~~and nine~~ months ended ~~October~~April 1, ~~2017~~2018 and ~~October~~April 2, ~~2016~~2017 are as follows (in millions):


	Three Months Ended						Nine Months Ended						Three Months Ended
	October 1, 2017			October 2, 2016			October 1, 2017			October 2, 2016			April 1, 2018			April 2, 2017
Balance at beginning of period	$	14		$	16		$	13		$	17		$	17		$	13
Additions charged to cost of product revenue	7			4			18			17			6			4
Repairs and replacements	(5		)	(6		)	(15		)	(20		)	(7		)	(5		)
Balance at end of period	$	16		$	14		$	16		$	14		$	16		$	12

~~Leases~~

~~Changes in the Company’s facility exit obligation related to its former headquarters lease during the three and nine months ended~~ ~~October 1, 2017~~ ~~and October 2, 2016 are as follows (in millions):~~

Three Months Ended Nine Months Ended
October 1,
2017 October 2,
2016 October 1,
2017 October 2,
2016
Balance at beginning of period $ 18
$ 21
$ 19
$ 22
Accretion of interest expense —
—
—
1
Cash payments (1 ) (1 ) (2 ) (3 )
Balance at end of period $ 17
$ 20
$ 17
$ 20

On February 22, 2017, the Company entered into a lease agreement for a building under construction in Madison, Wisconsin. Minimum lease payments during the initial 15-year term are estimated to be $46 million.

Investments in Consolidated ~~Variable Interest Entities~~

~~GRAIL, Inc.~~

In January 2016, the Company obtained a majority equity ownership interest in GRAIL, a company formed with unrelated third party investors to develop a blood test for early-stage cancer detection. The Company determined that GRAIL

was a variable interest entity as the entity lacked sufficient equity to finance its activities without additional support. Additionally, the Company determined that it had (a) control of GRAIL’s board of directors, which had unilateral power over the activities that most significantly impacted the economic performance of GRAIL and (b) the obligation to absorb losses of and the right to receive benefits from GRAIL that were potentially significant to GRAIL. As a result, the Company was deemed to be the primary beneficiary of GRAIL and was required to consolidate GRAIL.

In January 2016, GRAIL completed its Series A convertible preferred stock financing, raising $120 million, of which the Company invested $40 million. Additionally, the Company and GRAIL executed a long-term supply agreement in which the Company contributed certain perpetual licenses, employees, and discounted supply terms in exchange for 113 million shares of GRAIL’s Class B common stock. Such contributions were recorded at their historical basis as they remained within the control of the Company. The $80 million received by GRAIL from unrelated third party investors upon issuance of its Series A convertible preferred stock was classified as noncontrolling interests in stockholders’ equity on the Company’s condensed consolidated balance sheet.

In June 2016, GRAIL authorized for issuance 98 million shares of Series A-1 convertible preferred stock, all of which were issued to Illumina in exchange for Illumina’s 98 million shares of GRAIL Class B common stock. As a result of the exchange, Illumina recorded a $10 million deemed dividend, net of tax of $10 million, through equity, which was eliminated in consolidation.

~~Deconsolidation of GRAIL, Inc.~~

On February 28, 2017, GRAIL completed the initial close of its Series B preferred stock financing, raising over $900 million, in which the Company did not participate. Concurrent with the financing, GRAIL repurchased from the Company 35 million shares of its Series A preferred stock and approximately 34 million shares of its Series A-1 preferred stock for an aggregate purchase price of $278 million. At this time, the Company ceased to have a controlling financial interest in GRAIL and the Company’s equity ownership was reduced from 52% to 19%. Additionally, the Company’s voting interest was reduced to 13%, and the Company no longer has representation on GRAIL’s board of directors. As a result, the Company deconsolidated GRAIL’s financial statements effective February 28, 2017 and accounts for the remaining retained investment as a cost method investment. During the three months ended July 2, 2017, the Company purchased approximately 3 million Series B preferred shares for $14 million resulting in an ownership of approximately 17% of GRAIL’s outstanding stock and a 12% voting interest. As of October 1, 2017, the Company holds $185 million in other assets related to this investment, which consists of 5 million Series A preferred shares, and approximately 3 million Series B preferred shares and 78 million Class A common shares of GRAIL.

The operations of GRAIL from January 2, 2017 up to the date of deconsolidation are included in the accompanying condensed consolidated statements of income for the nine months ended October 1, 2017. During this period, the Company absorbed approximately 50% of GRAIL’s losses based upon its proportional ownership of GRAIL’s common stock.

On February 28, 2017, the Company recorded a pretax gain of $453 million included in other income, net, of which $159 million relates to the remeasurement of the Company’s retained equity interest to its fair value. The pretax gain on deconsolidation includes (i) the consideration received from GRAIL for its repurchase of a portion of the Company’s ownership interest, (ii) the derecognition of the carrying amounts of GRAIL’s assets and liabilities, (iii) the derecognition of the noncontrolling interest related to GRAIL, and (iv) the recording of the Company’s remaining interest in GRAIL at fair value. This fair value measurement of the Company’s remaining interest was derived using the market approach. Significant estimates and assumptions required for this valuation included, but were not limited to, various Black-Scholes option-pricing model assumptions as of the date of deconsolidation and estimated discounts for lack of marketability related to the equity securities. These unobservable inputs, which represent a Level 3 measurement, are supported by little or no market activity and reflect the Company’s own assumptions in measuring fair value.

In connection with the deconsolidation of GRAIL, the parties amended their long-term supply agreement, including the discounted supply terms. The repurchase and supply arrangements, which were entered into concurrently, contain various elements and, as such, are deemed to be an arrangement with multiple deliverables as defined under the respective authoritative accounting guidance. The Company determined that each of the elements, which include the purchase obligation, the purchase right, and services to be provided in accordance with the long-term supply agreement, were at, or approximated, fair value on a standalone basis, and therefore, there was no discount to allocate among the deliverables. As such, none of the deconsolidation gain was allocated to these elements.

VIEs

Helix Holdings I, LLC

In July 2015, ~~the Company~~we obtained a 50% voting equity ownership interest in Helix Holdings I, LLC (Helix), a limited liability company formed with unrelated ~~third party~~third-party investors to pursue the development and commercialization of a marketplace for consumer genomics. ~~The Company~~We determined that Helix is a ~~variable interest entity~~VIE as the holders of the at-risk equity investments as a group lack the power to direct the activities of Helix that most significantly impact Helix’s economic performance. Additionally, ~~the Company~~we determined that ~~it has~~we have (a) unilateral power over one of the activities that most significantly impacts the economic performance of Helix through its contractual arrangements and no one individual party has unilateral power over the remaining significant activities of Helix and (b) the obligation to absorb losses of and the right to receive benefits from Helix that are potentially significant to Helix. As a result, ~~the Company is~~we are deemed to be the primary beneficiary of Helix and isare required to consolidate Helix.

As contractually committed, ~~the Company~~in July 2015, we contributed certain perpetual licenses, instruments, intangibles, initial laboratory setup, and discounted supply terms in exchange for voting equity interests in Helix. Such contributions are recorded at their historical basis as they remain within ~~the control of the Company.~~our control. Helix is financed through cash contributions made by us and the ~~third party~~third-party investors in exchange for voting equity interests in Helix. During the three months ended April 1, 2018, we made an additional investment of $68 million in exchange for voting equity interests in Helix. As of April 1, 2018, the noncontrolling shareholders and Illumina each held 50% of Helix’s outstanding voting equity interests.

Certain noncontrolling Helix investors may require ~~the Company~~us to redeem ~~all~~certain noncontrolling interests in cash at the then approximate fair market value. Such redemption right is exercisable at the option of certain noncontrolling interest holders after January 1, 2021, provided that a bona fide pursuit of the sale of Helix has occurred and an initial public offering of Helix has not been completed. ~~The fair value of the redeemable noncontrolling interests is considered a Level 3 instrument.~~

As the contingent redemption is outside of ~~the~~our control, ~~of Illumina,~~ the redeemable noncontrolling interests in Helix are classified outside of stockholders’ equity on the accompanying condensed consolidated balance sheets. The balance of the redeemable noncontrolling interests is reported at the greater of its carrying value after receiving its allocation of Helix’s profits and losses or its estimated redemption fair value at each reporting date. AsThe fair value of ~~October 1, 2017,~~ the redeemable noncontrolling ~~shareholders and Illumina each held 50% of Helix’s outstanding voting equity interests.~~

The assets and liabilities of Helix are not significant to the Company’s financial position as of October 1, 2017. Helix has an immaterial impact on the Company’s condensed consolidated statements of income and cash flows for the three and nine months ended October 1, 2017.interests is considered a Level 3 instrument.

As of ~~October~~April 1, ~~2017,~~2018, the accompanying condensed consolidated balance sheet includes ~~$32~~$121 million of cash and cash equivalents attributable to Helix that will be used to settle their respective obligations and will not be available to settle obligations of Illumina. The remaining assets and liabilities of Helix are not significant to our financial position as of April 1, 2018. Helix has an immaterial impact on our condensed consolidated statements of income and cash flows for the ~~Company.~~three months ended April 1, 2018.

GRAIL, Inc.

In 2016, we obtained a majority equity ownership interest in GRAIL, a company formed with unrelated third-party investors to develop a blood test for early-stage cancer detection. We determined that GRAIL was a VIE as the entity lacked sufficient equity to finance its activities without additional support. Additionally, we determined that we had (a) control of GRAIL’s board of directors, which had unilateral power over the activities that most significantly impacted the economic performance of GRAIL and (b) the obligation to absorb losses of and the right to receive benefits from GRAIL that were potentially significant to GRAIL. As a result, we were deemed to be the primary beneficiary of GRAIL and were required to consolidate GRAIL.

On February 28, 2017, GRAIL completed the initial close of its Series B preferred stock financing. Concurrent with the financing, GRAIL repurchased from us 35 million shares of its Series A preferred stock and approximately 34 million shares of its Series A-1 preferred stock for an aggregate purchase price of $278 million. At this time, we ceased to have a controlling financial interest in GRAIL and our equity ownership was reduced from 52% to 19%. Additionally, our voting interest was reduced to 13%, and we no longer have representation on GRAIL’s board of directors. As a result, we deconsolidated GRAIL’s financial statements effective February 28, 2017 and recorded a pretax gain on deconsolidation of $453 million in other income, net. The carrying value of the remaining retained investment recorded in other assets was $185 million as of April 1, 2018 and December 31, 2017. The operations of GRAIL from January 2, 2017 up to February 28, 2017, the date of deconsolidation, are included in the accompanying condensed consolidated statements of income for the three months ended April 2, 2017. During this period, we absorbed approximately 50% of GRAIL’s losses based upon our proportional ownership of GRAIL’s common stock.

Redeemable Noncontrolling Interests

The activity of the redeemable noncontrolling interests during the ~~nine~~three months ended ~~October~~April 1, ~~2017~~2018 is as follows (in millions):

Redeemable Noncontrolling Interests
Balance as of January 1, 2017 $ 44
Amount released from escrow 79
Vesting of redeemable equity awards 12
Net loss attributable to noncontrolling interests (30 )
Adjustment up to the redemption value 30
Deconsolidation of GRAIL (11 )
Balance as of October 1, 2017 $ 124



	Redeemable Noncontrolling Interests
Balance as of December 31, 2017	$	220
Net loss attributable to noncontrolling interests	(10		)
Adjustment up to the redemption value	5
Balance as of April 1, 2018	$	215

3. Fair Value Measurements

The following table presents the ~~Company’s~~ hierarchy for assets and liabilities measured at fair value on a recurring basis as of ~~October~~April 1, ~~2017~~2018 and ~~January 1,~~December 31, 2017 (in millions):


	October 1, 2017								January 1, 2017								April 1, 2018								December 31, 2017
	Level 1		Level 2		Level 3		Total		Level 1		Level 2		Level 3		Total		Level 1		Level 2		Level 3		Total		Level 1		Level 2		Level 3		Total
Assets:
Money market funds (cash equivalents)	$	1,051	$	—	$	—	$	1,051	$	386	$	—	$	—	$	386	$	1,282	$	—	$	—	$	1,282	$	957	$	—	$	—	$	957
Debt securities in government-sponsored entities	—		74		—		74		—		34		—		34		—		38		—		38		—		67		—		67
Corporate debt securities	—		342		—		342		—		476		—		476		—		373		—		373		—		421		—		421
U.S. Treasury securities	271		—		—		271		314		—		—		314		402		—		—		402		432		—		—		432
Deferred compensation plan assets	—		34		—		34		—		31		—		31		—		35		—		35		—		35		—		35
Total assets measured at fair value	$	1,322	$	450	$	—	$	1,772	$	700	$	541	$	—	$	1,241	$	1,684	$	446	$	—	$	2,130	$	1,389	$	523	$	—	$	1,912
Liabilities:
Acquisition related contingent consideration liabilities	$	—	$	—	$	—	$	—	$	—	$	—	$	4	$	4
Deferred compensation liability	—		31		—		31		—		29		—		29		$	—	$	34	$	—	$	34	$	—	$	33	$	—	$	33
Total liabilities measured at fair value	$	—	$	31	$	—	$	31	$	—	$	29	$	4	$	33

~~The Company holds~~We hold available-for-sale securities that consist of ~~highly liquid, investment grade~~highly-liquid, investment-grade debt securities. ~~The Company considers~~We consider information provided by ~~the Company’s~~our investment accounting and reporting service provider in the measurement of fair value of ~~its~~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. ~~The Company’s~~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. ~~The Company performs~~We perform control procedures to corroborate the fair value of ~~its~~our holdings, including comparing valuations obtained from ~~its~~our investment service provider to valuations reported by ~~the Company’s~~our asset custodians, validation of pricing sources and models, and review of key model inputs, if necessary.

4. Debt and Other Commitments

Summary of debt obligations

~~The Company’s debt~~Debt obligations consist of the following (dollars in millions):


	October 1, 2017			January 1, 2017			April 1, 2018			December 31, 2017
Principal amount of 2019 Notes outstanding	$	633		$	633		$	633		$	633
Principal amount of 2021 Notes outstanding	517			517			517			517
Unamortized discount of liability component of convertible senior notes	(83		)	(105		)	(68		)	(75		)
Net carrying amount of liability component of convertible senior notes	1,067			1,045			1,082			1,075
Obligations under financing leases	111			9			244			113
Other	4			4			4			4
Less: current portion	(2		)	(2		)	(620		)	(10		)
Long-term debt	$	1,180		$	1,056		$	710		$	1,182
Carrying value of equity component of convertible senior notes, net of debt issuance cost	$	161		$	161		$	161		$	161
Fair value of convertible senior notes outstanding (Level 2)	$	1,262		$	1,108		$	1,333		$	1,305
Weighted-average remaining amortization period of discount on the liability component of convertible senior notes	3.0 years			3.6 years			2.6 years			2.8 years

Convertible Senior Notes

0% Convertible Senior Notes due 2019 (2019 Notes) and 0.5% Convertible Senior Notes due 2021 (2021 Notes)

In June 2014, ~~the Company~~we issued $633 million aggregate principal amount of 2019 Notes and $517 million aggregate principal amount of 2021 Notes. ~~The Company~~We used the net proceeds plus cash on hand to repurchase outstanding debt. The 2019 and 2021 Notes mature on June 15, 2019 and June 15, 2021, respectively, and the implied estimated effective rates of the liability components of the Notes were 2.9% and 3.5%, respectively, assuming no conversion.

Both the 2019 and 2021 Notes will be convertible into cash, shares of common stock, or a combination of cash and shares of common stock, at ~~the Company's~~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 and to the following extent: (1) during the five business-day period after any 10 consecutive trading day period (the measurement period) in which the trading price per 2019 and 2021 ~~Note~~Notes for each day of such measurement period was less than 98% of the product of the last reported sale price of ~~the Company’s~~our common stock and the conversion rate on each such day; (2) during any calendar quarter (and only during that quarter) after the calendar quarter ending September 30, 2014, if the last reported sale price of ~~the Company’s~~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; (3) upon the occurrence of specified events described in the indenture for the 2019 and 2021 Notes; and (4) at any time on or after March 15, 2019 for the 2019 Notes, or March 15, 2021 for the 2021 Notes, through the second scheduled trading day immediately preceding the maturity date.

Neither the 2019 nor the 2021 Notes were convertible as of ~~October~~April 1, ~~2017,~~2018 and had no dilutive impact during the three ~~and nine~~ months ended ~~October~~April 1, ~~2017.~~2018. If the 2019 and 2021 Notes were converted as of ~~October~~April 1, ~~2017,~~2018, the if-converted value would not exceed the principal amount.

~~0.25% Convertible Senior Notes due 2016~~

In 2011, the Company issued $920 million aggregate principal amount of 0.25% convertible senior notes due 2016 (2016 Notes) with a maturity date of March 15, 2016. The effective rate of the liability component was estimated to be 4.5%. Based upon meeting the stock trading price conversion requirement during During the three months ended ~~March 30, 2014, the 2016 Notes became convertible on~~ April 1, ~~2014 through, and including, March 11, 2016. All notes were converted by March 11, 2016.~~2018, the carrying value of the 2019 Notes was reclassified to short-term as they become convertible within twelve months of the balance sheet date.

Build-to-suit leases

~~The Company evaluates~~We evaluate whether ~~it is~~we are the accounting owner of leased assets during the construction period when ~~the Company is~~we are involved in the construction of leased assets. ~~Including the Madison lease agreement entered on February 28, 2017, the Company is~~We are considered the owner of ~~two~~a construction ~~projects~~project for accounting purposes only under build-to-suit lease accounting due to certain indemnification obligations related to the construction. As of ~~October~~April 1, 2018, and December 31, 2017, ~~and January 1, 2017, the Company has~~we recorded ~~$124~~$21 million and ~~$223~~$144 million, respectively, in project construction costs paid or reimbursed by the landlord as construction in progress and a corresponding build-to-suit lease liability.

During the ~~nine~~three months ended ~~October~~April 1, ~~2017,~~2018, construction of a build-to-suit property was completed. ~~The Company~~We concluded itwe did not qualify for “sale-leaseback” treatment and the lease is accounted for as a financing obligation. Accordingly, ~~the Company reclassified $102~~$132 million of construction in progress and build-to-suit lease liability were reclassified to building asset and obligations under financing ~~leases,~~lease, respectively.

On February 28, 2017, the Company deconsolidated GRAIL, as further described in note “2. Balance Sheet Account Details”, and removed $58 million of construction in progress and the corresponding build-to-suit lease liability.

5. Share-based Compensation Expense

Share-based compensation expense ~~for all stock awards consists~~is reported in our statements of ~~the following~~income as follows (in millions):


	Three Months Ended						Nine Months Ended						Three Months Ended
	October 1, 2017			October 2, 2016			October 1, 2017			October 2, 2016			April 1, 2018			April 2, 2017
Cost of product revenue	$	3		$	2		$	9		$	6		$	4		$	3
Cost of service and other revenue	1			1			2			2			1			—
Research and development	12			12			38			33			15			14
Selling, general and administrative	18			20			74			61			28			33
Share-based compensation expense before taxes	34			35			123			102			48			50
Related income tax benefits	(11		)	(8		)	(34		)	(23		)	(10		)	(11		)
Share-based compensation expense, net of taxes	$	23		$	27		$	89		$	79		$	38		$	39

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) during the ~~nine~~three months ended ~~October~~April 1, ~~2017~~2018 are as follows:


	Employee Stock Purchase Rights			Employee Stock Purchase Rights
Risk-free interest rate	0.50% - 1.22%			0.83% - 1.89%
Expected volatility	29% - 44%			28% - 44%
Expected term	0.5 - 1.0 year			0.5 - 1.0 year
Expected dividends	0		%	0		%
Weighted-average fair value per share	$	46.85		$	55.83

As of ~~October~~April 1, ~~2017,~~2018, approximately ~~$242~~$360 million of unrecognized compensation cost related to restricted stock and ESPP shares granted to date is expected to be recognized over a weighted-average period of approximately ~~2.2~~2.5 years.

6. Stockholders’ Equity

As of ~~October~~April 1, ~~2017,~~2018, approximately ~~6.3~~5.5 million shares remained available for future grants under the 2015 Stock Plan.

Restricted Stock

~~The Company’s restricted~~Restricted stock activity and related information for the ~~nine~~three months ended ~~October~~April 1, ~~2017~~2018 is as follows (units in thousands):


	Restricted Stock Awards (RSA)		Restricted Stock Units (RSU)			Performance Stock Units (PSU)(1)		Weighted-Average Grant-Date Fair Value per Share						Restricted Stock Units (RSU)			Performance Stock Units (PSU)(1)			Weighted-Average Grant-Date Fair Value per Share
	Restricted Stock Awards (RSA)				RSA			RSU		PSU			RSU				Performance Stock Units (PSU)(1)		PSU
Outstanding at January 1, 2017	32		Restricted Stock Units (RSU)		2,293	Performance Stock Units (PSU)(1)			460	$	136.30	$	141.80	Restricted Stock Units (RSU)		$	158.66
Outstanding at December 31, 2017														2,085			542			$	172.92	$	166.15
Awarded	—		141			38		—		$	173.08	$	154.93	17			45			$	228.79	$	164.36
Vested	(11	)	(257	)		—		$	179.00	$	110.56	—		(61	)		—			$	151.01	—
Cancelled	—		(184	)		(60	)	—		$	149.22	$	176.15	(70	)		(15	)		$	168.15	$	161.84
Outstanding at October 1, 2017	21		1,993			438		$	114.59	$	147.41	$	155.95
Outstanding at April 1, 2018														1,971			572			$	174.23	$	166.12


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

Stock Options

~~The Company’s stock~~Stock option activity ~~under all stock option plans~~ during the ~~nine~~three months ended ~~October~~April 1, ~~2017~~2018 is as follows:

Options
(in thousands)

Weighted-Average
Exercise Price
Outstanding at January 1, 2017 1,045
$ 48.56
Exercised (604 ) $ 46.43
Outstanding and exercisable at October 1, 2017 441
$ 51.51



	Options (in thousands)		Weighted-Average Exercise Price
Outstanding at December 31, 2017	322		$	46.93
Exercised	(17	)	$	41.91
Outstanding and exercisable at April 1, 2018	305		$	47.20

~~Employee Stock Purchase Plan~~ESPP

The price at which common stock is purchased under the 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 ~~nine~~three months ended ~~October~~April 1, ~~2017~~2018, approximately ~~0.3~~0.1 million shares were issued under the ESPP. As of ~~October~~April 1, ~~2017~~2018, there were approximately ~~14.0~~13.9 million shares available for issuance under the ESPP.

Share Repurchases

On July 28, 2016, ~~the Company’s~~our Board of Directors authorized a share repurchase program, which superseded all prior and available repurchase authorizations, to repurchase $250 million of outstanding common stock. During the three months ended April 2, 2017, ~~the Company~~we repurchased 0.6 million shares for $101 million, completing the share repurchase program.

On May 4, 2017, ~~the Company’s~~our Board of Directors authorized an additional share repurchase program to repurchase $250 million of outstanding common stock. The repurchases may be completed under a 10b5-1 plan or at management’s discretion. ~~During the three months ended October 1, 2017, the Company repurchased 0.4 million shares for $75 million under a 10b5-1 plan.~~ Authorizations to repurchase ~~$175~~$100 million of ~~the Company’s~~our common stock remained available as of ~~October~~April 1, ~~2017.~~2018.

7. Income Taxes

~~The Company’s~~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~~rate for the three ~~and nine~~ months ended ~~October~~April 1, ~~2017 were 12.9% and 24.3%, respectively. For the three and nine months ended October 1, 2017, the~~2018 was 10.6%. The variance from the U.S. federal statutory tax rate of ~~35%~~21% was primarily attributable to 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, and ~~excess tax benefits related to share-based compensation. In addition, for the nine months ended October 1, 2017, the decrease from the federal statutory tax rate was partially offset by~~ the discrete tax ~~impact~~benefit associated with the recognition of ~~$150 million~~prior year losses from our investment in Helix.

We continue to evaluate the ~~gain on~~impacts of U.S. Tax Reform as we interpret the ~~deconsolidation~~legislation, including the newly-enacted global intangible low-taxed income (GILTI) provisions which subject our foreign earnings to a minimum level of ~~GRAIL.~~tax. Because of the complexities of the new legislation, we have not yet elected an accounting policy for GILTI and therefore have only

included GILTI related to current year operations in our estimated provision for income taxes. Recent FASB guidance indicates that accounting for GILTI either as part of deferred taxes or as a period cost are both acceptable methods. Once further information is gathered and interpretation and analysis of the tax legislation evolves we will make an appropriate accounting method election.

8. Legal Proceedings

~~The Company is~~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, ~~the Company assesses,~~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 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 results could occur, assessing contingencies is highly subjective and requires judgments about future events. ~~The Company~~We regularly ~~reviews~~review outstanding legal matters to determine the adequacy of the liabilities accrued and related disclosures. The amount of ultimate loss may differ from these estimates. Each matter presents its own unique circumstances, and prior litigation does not necessarily provide a reliable basis on which to predict the outcome, or range of outcomes, in any individual proceeding. Because of the uncertainties related to the occurrence, amount, and range of loss on any pending litigation or claim, ~~the Company is~~we are currently unable to predict their ultimate outcome, and, with respect to any pending litigation or claim where no liability has been accrued, to make a meaningful estimate of the reasonably possible loss or range of loss that could result from an unfavorable outcome. In the event ~~that~~ opposing litigants in outstanding litigations or claims ultimately succeed at trial and any subsequent appeals on their claims, any potential loss or charges in excess of any established accruals, individually or in the aggregate, could have a material adverse effect on ~~the Company’s~~our business, financial condition, results of operations, and/or cash flows in the period in which the unfavorable outcome occurs or becomes probable, and potentially in future periods.

9. Segment Information

~~The Company has~~We have two reportable segments: Core Illumina and one segment related to the combined activities of ~~the Company’s~~our consolidated VIEs, GRAIL and Helix (Consolidated VIEs). Following the GRAIL deconsolidation on February 28, 2017, ~~the Company’s~~our Consolidated VIEs no longer include GRAIL. ~~The Company reports~~

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 ~~the Company’s~~our reportable segments. The CODM allocates resources and assesses the performance of each operating segment using information about its ~~revenues~~revenue and income ~~(losses)~~(loss) from operations. Based on the information used by the CODM, ~~the Company has~~we have determined ~~its~~our reportable segments as follows:

Core 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 operations, ~~of the Company,~~ excluding the results of ~~its~~the consolidated VIEs.

Consolidated VIEs:

~~GRAIL~~:GRAIL was created to develop a blood test for early-stage cancer detection. GRAIL is currently in the early stages of developing this test and as such, had no revenues through the date of deconsolidation.

Helix: Helix was established to enable individuals to explore their genetic information by providing affordable sequencing and database services for consumers through ~~third party~~third-party partners, driving the creation of an ecosystem of consumer applications.

GRAIL:GRAIL was created to develop a blood test for early-stage cancer detection. GRAIL was in the early stages of developing this test and as such, had no revenues through the date of deconsolidation.

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

The following table presents the operating performance of each reportable segment (in millions):


	Three Months Ended						Nine Months Ended						Three Months Ended
	October 1, 2017			October 2, 2016			October 1, 2017			October 2, 2016			April 1, 2018			April 2, 2017
Revenues:
Revenue:
Core Illumina	$	715		$	615		$	1,978		$	1,792		$	783		$	598
Consolidated VIEs	1			—			4			—			3			1
Elimination of intersegment revenues	(2		)	(8		)	(7		)	(13		)
Consolidated revenues	$	714		$	607		$	1,975		$	1,779
Elimination of intersegment revenue													(4		)	(1		)
Consolidated revenue													$	782		$	598

Operating income (loss):
Income (loss) from operations:
Core Illumina	$	203		$	191		$	447		$	502		$	238		$	84
Consolidated VIEs	(22		)	(25		)	(72		)	(50		)	(21		)	(34		)
Elimination of intersegment earnings	—			(5		)	1			(8		)	1			2
Consolidated operating income	$	181		$	161		$	376		$	444
Consolidated income from operations													$	218		$	52

The following table presents the total assets of each reportable segment (in millions):


	October 1, 2017			January 1, 2017			April 1, 2018			December 31, 2017
Total assets:
Core Illumina	$	4,999		$	4,167		$	5,465		$	5,223
Consolidated VIEs	59			180			155			45
Elimination of intersegment assets	(12		)	(66		)	(78		)	(11		)
Consolidated total assets	$	5,046		$	4,281		$	5,542		$	5,257

Item 2. Management’s Discussion and Analysis of Financial Condition and Results of Operations.

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:

Business 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 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 we believe are important to understanding the assumptions and judgments underlying our financial statements.

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

This MD&A discussion contains forward-looking statements that involve risks and uncertainties. Please see “Consideration Regarding Forward-Looking Statements” at the end of this MD&A section 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 ~~January 1,~~December 31, 2017. Operating results are not necessarily indicative of results that may occur in future periods.

Business Overview and Outlook

This overview and outlook provides a ~~high level~~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 ~~Quarterly Report on Form 10-Q.~~report.

About Illumina

~~The Company has~~We have two reportable segments: Illumina’s core operations (Core Illumina) and one segment related to the combined activities of ~~the Company’s~~our consolidated VIEs, GRAIL and Helix (Consolidated VIEs). Following the GRAIL deconsolidation on February 28, 2017, ~~the Company’s~~our Consolidated VIEs no longer include GRAIL. For information on GRAIL and Helix, refer to notes 2 and 9 of the Notes to the Condensed Consolidated Financial Statements provided in this ~~Quarterly Report on Form 10-Q.~~report.

~~Our focus on innovation has established us as~~We are the global leader in sequencing- and array-based ~~technologies~~solutions for genetic ~~analysis, serving~~analysis. Our products and services serve customers in a wide range of markets, enabling the adoption of genomic solutions in research and clinical settings.

Our customers include leading genomic research centers, academic institutions, government laboratories, and hospitals, as well as pharmaceutical, biotechnology, ~~agrigenomics,~~ commercial molecular diagnostic laboratories, and consumer genomics companies.

Our portfolio of integrated sequencing and microarray systems, consumables, and analysis tools is designed to accelerate and simplify genetic analysis. This portfolio addresses the range of genomic complexity, price points, and throughput, enabling customers to select the best solution for their research or clinical challenge.

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 I of this report, and the other transactions, events, and trends discussed in “Risk Factors” in Item 1A, Part II of this report and Item 1A of our Annual Report on Form 10-K for the fiscal year ended ~~January 1,~~December 31, 2017.

~~Next-Generation Sequencing~~

Next-generation sequencing has become an essential technology in our markets, and our portfolio of sequencing platforms represents a family of systems that are designed to meet the workflow, output, and accuracy demands of a full range of sequencing applications. We believe that the expanding sequencing market, along with an increase in the number of samples available and enhancements in our sequencing portfolio, will continue to drive demand for our next-generation sequencing technologies. As a result, we believe that our sequencing consumables revenue will continue to grow in future periods.

~~Arrays~~

As a complement to next-generation sequencing, we believe arrays offer a less expensive, faster, and highly accurate technology for use when genetic content is already known. The information content of arrays is fixed and reproducible, providing a repeatable, standardized technology to read out subsets of nucleotide bases within the overall genome. We believe that our customers, particularly in research, will migrate certain array studies to sequencing. However, we expect that demand from customers in applied markets who require high-throughput, cost-effective screening solutions will provide growth. Demand in the array market has trended toward more focused arrays that can be used on larger numbers of samples, resulting in a lower selling price per sample.

Financial Overview

Consolidated financial highlights for ~~the first three quarters of 2017~~Q1 2018 include the following:

Net revenue increased ~~11%~~31% during ~~the first three quarters of 2017~~Q1 2018 to ~~$2.0 billion~~$782 million compared to ~~$1.8 billion~~$598 million in ~~the first three quarters of 2016~~Q1 2017 due to the growth in sales of our sequencing consumables and genotyping services, as well as ~~the launch~~increased shipments of our NovaSeq ~~platform,~~instrument, partially offset by lower shipments of our HiSeq instruments. We expect our revenue to continue to increase in ~~2017.~~2018.

Gross profit as a percentage of revenue (gross margin) was ~~65.0%~~68.8% in ~~the first three quarters of 2017~~Q1 2018 compared to ~~70.1%~~61.5% in ~~the first three quarters of 2016.~~Q1 2017. The gross margin ~~decrease~~increase was primarily driven by favorable service margins and an increase in consumables, which generate higher gross margins, as a ~~variety~~percentage of ~~factors, including~~revenue. Gross margin also increased due to the impairment of an acquired intangible asset ~~an increase in lower-margin array services mix,~~and inventory reserves related to product transitions ~~and lower instrument margin from the NovaSeq introduction.~~that were recorded in Q1 2017. Our gross margin in future periods will depend on several factors, including: market conditions that may impact our pricing power; sales mix changes among consumables, instruments, and services; product mix changes between established products and new ~~products in new markets;~~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~~increased to ~~19.0%~~27.8% in ~~the first three quarters of 2017~~Q1 2018 compared to ~~25.0%~~8.7% in ~~the first three quarters of 2016~~Q1 2017 primarily due to ~~lower~~increased revenue, improved gross ~~margins.~~margins, and a decrease in operating expenses as a result of the deconsolidation of GRAIL in Q1 2017. We expect research and development and selling, general and administrative expenses to continue to grow.

For U.S. federal purposes the corporate statutory income tax rate was reduced from 35% to 21%, effective for our 2018 tax year. The provisional impact of U.S. Tax Reform is our current best estimate based on a preliminary review of the new law and is subject to revision based on our existing accounting for income taxes policy as further information is gathered, and interpretation and analysis of the tax legislation evolves. The Securities and Exchange Commission has issued rules allowing for a measurement period of up to one year after the enactment date of U.S. Tax Reform to finalize the recording of the related tax impacts. Any future changes to our provisional estimated impact of U.S. Tax Reform will be included as an adjustment to the provision for income taxes.

Our effective tax rate was ~~24.3%~~10.6% in ~~the first three quarters of 2017~~Q1 2018 compared to ~~24.9%~~30.8% in ~~the first three quarters of 2016.~~Q1 2017. The variance from the U.S. federal statutory tax rate of ~~35%~~21% in Q1 2018 was primarily attributable to 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, and ~~excess tax benefits related to share-based compensation, partially offset by~~ the discrete tax ~~impact~~benefit associated with the recognition of ~~$150 million~~prior year losses from ~~the gain on the deconsolidation of GRAIL.~~ 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” in Part I Item 1A of our Annual Report on Form 10-K for the fiscal year ended ~~January 1,~~December 31, 2017. WeBased on our initial interpretation and analysis of U.S. Tax Reform and projected future financial results, we anticipate that our effective tax rate will trend lower than the U.S. federal statutory tax rate in the future due to the portion of our earnings that will be subject to lower statutory tax rates. As further information is gathered, and interpretation and analysis of the tax legislation evolves, we will update our estimate of the future effective tax rate.

Cash, cash equivalents, and short-term investments were $~~2.0~~2 billion as of ~~October~~April 1, ~~2017,~~2018, of which approximately ~~$953 million~~$1 billion was held by our foreign subsidiaries.

Results of Operations

To enhance comparability, the following table sets forth our unaudited condensed consolidated statements of income for the specified reporting periods stated as a percentage of total revenue.

Q3 2017 Q3 2016 YTD 2017 YTD 2016
Revenue:
Product revenue 83.5 % 84.7 % 82.6 % 84.7 %
Service and other revenue 16.5
15.3
17.4
15.3
Total revenue 100.0
100.0
100.0
100.0
Cost of revenue:
Cost of product revenue 24.2
21.7
25.7
21.5
Cost of service and other revenue 7.0
6.3
7.7
6.6
Amortization of acquired intangible assets 1.3
1.8
1.6
1.8
Total cost of revenue 32.5
29.8
35.0
29.9
Gross profit 67.5
70.2
65.0
70.1
Operating expense:
Research and development 18.7
20.7
20.7
21.0
Selling, general and administrative 23.5
23.0
25.3
24.6


Legal contingencies	—		—		—		(0.5	)
									Q1 2018		Q1 2017
Revenue:
Product revenue									80.3	%	82.1	%
Service and other revenue									19.7		17.9
Total revenue									100.0		100.0
Cost of revenue:
Cost of product revenue									22.3		27.8
Cost of service and other revenue									7.9		8.9
Amortization of acquired intangible assets									1.0		1.8
Total cost of revenue									31.2		38.5
Gross profit									68.8		61.5
Operating expense:
Research and development									17.5		24.2
Selling, general and administrative									23.5		28.6
Total operating expense	42.2		43.7		46.0		45.1		41.0		52.8
Income from operations	25.3		26.5		19.0		25.0		27.8		8.7
Other income (expense):
Interest income	0.6		0.3		0.7		0.4		0.6		0.7
Interest expense	(1.4	)	(1.3	)	(1.3	)	(1.5	)	(1.4	)	(1.3	)
Other income, net	—		—		23.1		0.1		1.2		76.0
Total other (expense) income, net	(0.8	)	(1.0	)	22.5		(1.0	)
Total other income, net									0.4		75.4
Income before income taxes	24.5		25.5		41.5		24.0		28.2		84.1
Provision for income taxes	3.2		6.1		10.1		6.0		3.0		25.9
Consolidated net income	21.3		19.4		31.4		18.0		25.2		58.2
Add: Net loss attributable to noncontrolling interests	1.5		2.0		1.9		1.0		1.4		3.2
Net income attributable to Illumina stockholders	22.8	%	21.4	%	33.3	%	19.0	%	26.6	%	61.4	%

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 nine~~ ~~month~~three-month periods ended ~~October~~April 1, ~~2017~~2018 and ~~October~~April 2, ~~2016~~2017 were both 13 ~~and 39 weeks, respectively.~~weeks.

Revenue


(Dollars in millions)	Q3 2017		Q3 2016		Change		% Change		YTD 2017		YTD 2016		Change		% Change		Q1 2018		Q1 2017		Change		% Change
Product revenue	$	596	$	514	$	82	16	%	$	1,631	$	1,506	$	125	8	%
Consumables																	$	504	$	387	$	117	30	%
Instruments																	118		100		18		18
Other product																	6		4		2		50
Total product revenue																	628		491		137		28
Service and other revenue	118		93		25		27		344		273		71		26		154		107		47		44
Total revenue	$	714	$	607	$	107	18	%	$	1,975	$	1,779	$	196	11	%	$	782	$	598	$	184	31	%

~~Product~~Other product revenue consists primarily of ~~revenue from sales of consumables and instruments.~~freight. Service and other revenue consists primarily of sequencing and genotyping service revenue as well as instrument service contract revenue. Total revenue primarily relates to Core Illumina for all periods presented.

~~QTD 2017 vs. QTD 2016~~

~~Revenue increased $107 million, or 18%, to $714 million~~The increase in consumables revenue in ~~Q3 2017~~Q1 2018 compared to ~~$607~~Q1 2017 was primarily due to a $99 million increase in ~~Q3 2016.~~

~~Consumables~~sequencing consumables revenue~~increased~~ ~~$55 million, or~~ ~~14%, to~~ ~~$451 million~~ in ~~Q3 2017~~ ~~compared to~~ ~~$396 million~~ ~~in Q3 2016,~~ driven by growth in the ~~sequencing~~ instrument installed base.

Instrument revenue increased ~~$28 million, or 25%, to $140 million~~ in ~~Q3 2017~~Q1 2018 compared to ~~$112 million in Q3 2016,~~Q1 2017 primarily due to a $17 million increase in sequencing instruments revenue driven by shipments of our NovaSeq instrument, ~~introduced in Q1 2017,~~ partially offset by lower shipments of our HiSeq ~~and HiSeq X~~ instruments.

Service and other revenue increased ~~$25 million, or 27%, to $118 million~~ in ~~Q3 2017~~Q1 2018 compared to ~~$93 million in Q3 2016, driven by~~Q1 2017 as a result of increased revenue fromgenotyping ~~services~~ and ~~instrument service contracts associated with a larger~~ sequencing ~~installed base.~~services.

~~YTD 2017 vs. YTD 2016~~

~~Revenue increased $196 million, or 11%, to $1,975 million in the first three quarters of 2017 compared to $1,779 million in the first three quarters of 2016.~~

Consumables revenue increased $103 million, or 9%, to $1,240 million in the first three quarters of 2017 compared to $1,137 million in the first three quarters of 2016, driven by growth in the sequencing instrument installed base.

Instrument revenue increased $20 million, or 6%, to $376 million in the first three quarters of 2017 compared to $356 million in the first three quarters of 2016, primarily due to shipments of our NovaSeq instrument introduced in Q1 2017, partially offset by lower shipments of our HiSeq and HiSeq X instruments.

Service and other revenue increased $71 million, or 26%, to $344 million in the first three quarters of 2017 compared to $273 million in the first three quarters of 2016, driven by revenue from genotyping services and extended instrument service contracts associated with a larger sequencing installed base.

Gross Margin


(Dollars in millions)	Q3 2017			Q3 2016			Change		% Change	YTD 2017			YTD 2016			Change		% Change	Q1 2018			Q1 2017			Change		% Change
Gross profit	$	482		$	426		$	56	13%	$	1,284		$	1,247		$	37	3%	$	538		$	368		$	170	46%
Gross margin	67.5		%	70.2		%				65.0		%	70.1		%				68.8		%	61.5		%

~~QTD 2017 vs. QTD 2016~~

~~Gross margin decreased to 67.5% in Q3 2017 from 70.2% in Q3 2016.~~ The gross margin ~~decrease~~increase in Q1 2018 from Q1 2017 was primarily driven by favorable service margins and an increase in ~~lower-margin array services mix and lower instrument margin from the NovaSeq introduction.~~

~~YTD 2017 vs. YTD 2016~~

consumables, which generate higher gross margins, as a percentage of revenue. Gross margin ~~decreased~~also increased due to ~~65.0% in~~ the ~~first three quarters of 2017 compared to 70.1% in the first three quarters of 2016. The gross margin decrease was driven by a variety of factors, including an~~ $18 millionimpairment of an acquired intangible asset ~~an increase in lower-margin array services mix,~~and inventory reserves related to product transitions ~~and lower instrument margin from the NovaSeq introduction.~~that were recorded in Q1 2017.

Operating Expense


(Dollars in millions)	Q3 2017		Q3 2016		Change		% Change		YTD 2017		YTD 2016			Change		% Change		Q1 2018		Q1 2017		Change			% Change
Research and development	$	134	$	126	$	8	6	%	$	409	$	374		$	35	9	%	$	137	$	145	$	(8	)	(6	)%
Selling, general and administrative	167		139		28		20		499		438			61		14		183		171		12			7
Legal contingencies	—		—		—		—		—		(9		)	9		(100	)
Total operating expense	$	301	$	265	$	36	14	%	$	908	$	803		$	105	13	%	$	320	$	316	$	4		1	%

~~QTD 2017 vs. QTD 2016~~

~~Research and development (R&D) expense increased by $8 million, or 6%, in Q3 2017 from Q3 2016.~~ Core Illumina R&D expense ~~increased~~decreased by ~~$16~~$1 million, or ~~14%~~1%, in Q3Q1 2018 from Q1 2017 ~~from Q3 2016~~ primarily due to ~~increased headcount. R&D expense~~a $5 million impairment of ~~our Consolidated VIEs decreased by $8 million primarily due to the deconsolidation of GRAIL~~in-process research and development recorded in Q1 2017, partially offset by ~~higher headcount at Helix.~~

Selling, general and administrative (SG&A) expense increased by $28 million, or 20%, in Q3 2017 from Q3 2016. Core Illumina SG&A expense increased by $25 million, or 19%, in Q3 2017 from Q3 2016 primarily due to increased investment in headcount and facilities to support the continued growth and scale of our operations. SG&A expense of our Consolidated VIEs increased by $3 million due to marketing expenses related to Helix’s platform launch being offset by the deconsolidation of GRAIL in Q1 2017.

~~YTD 2017 vs. YTD 2016~~

Research and development expense increased by $35 million, or 9%, in the first three quarters of 2017 compared to the first three quarters of 2016. Core Illumina R&D expense increased by $41 million, or 12%, primarily due to increased headcount as we continue to invest in the research and development of new products ~~as well as~~and enhancements to existing products. R&D expense of our Consolidated VIEs decreased by $6$7 million primarily due to the deconsolidation of GRAIL in Q1 ~~2017, partially offset by growth in Helix’s operations.~~2017.

~~Selling, general and administrative expense increased by $61 million, or 14%, in the first three quarters of 2017 compared to the first three quarters of 2016.~~ Core Illumina SG&A expense increased by ~~$42~~$22 million, or ~~10%~~14%, in Q1 2018 from Q1 2017 primarily due to increased headcount ~~and facilities investment~~ to support the continued growth and scale of our ~~operations.~~operations, partially offset by a reduction in legal contingencies. SG&A expense of our Consolidated VIEs ~~increased~~decreased by ~~$19~~$10 million primarily due to marketing expenses related to Helix’s platform launch and increased headcount, as well as performance based compensation related to the GRAIL Series B financing. These results were partially offset by the deconsolidation of GRAIL in Q1 2017.

~~Legal contingencies in the first three quarters of 2016 represent a reversal of previously recorded expense related to the settlement of patent litigation.~~

Other ~~(Expense)~~ Income ~~Net~~(Expense)


(Dollars in millions)	Q3 2017			Q3 2016			Change			% Change		YTD 2017			YTD 2016			Change			% Change		Q1 2018			Q1 2017			Change			% Change
Interest income	$	4		$	2		$	2		100	%	$	13		$	7		$	6		86	%	$	5		$	4		$	1		25	%
Interest expense	(10		)	(9		)	(1		)	11		(26		)	(25		)	(1		)	4		(11		)	(8		)	(3		)	38
Other income, net	—			—			—			—		457			1			456			45,600		9			455			(446		)	(98	)
Total other (expense) income, net	$	(6	)	$	(7	)	$	1		(14	)%	$	444		$	(17	)	$	461		(2,712	)%
Total other income, net																							$	3		$	451		$	(448	)	(99	)%

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

~~QTD 2017 vs. QTD 2016~~

Interest income increased in ~~Q3 2017~~Q1 2018 compared to ~~Q3 2016~~Q1 2017 as a result of higher yields on our investments and higher ~~savings~~cash and ~~money market~~cash-equivalent balances. Interest expense ~~consisted~~consists primarily of accretion of discount on our convertible senior ~~notes.~~

~~YTD 2017 vs. YTD 2016~~

~~Interest income increased in the first three quarters of 2017 compared to the first three quarters of 2016 as a result of higher yields~~notes and interest recorded on our ~~investments and higher savings and money market balances. Interest expense consisted primarily of accretion of discount on~~financing obligations related to our ~~convertible senior notes.~~build-to-suit properties.

Other income, net decreased in ~~the first three quarters of~~Q1 2018 compared to Q1 2017 primarily ~~consists of~~due to a $453 million gain recorded on the deconsolidation of ~~GRAIL.~~GRAIL in Q1 2017. Other income, net in ~~the first three quarters~~Q1 2018 primarily consists of ~~2016 primarily consisted of net foreign exchange~~ gains ~~and losses.~~recorded on our strategic investments.

Provision for Income Taxes

(Dollars in millions) Q3 2017 Q3 2016 Change % Change YTD 2017 YTD 2016 Change % Change
Income before income taxes $ 175
$ 154
$ 21
14 % $ 820
$ 427
$ 393
92 %
Provision for income taxes 23
37
(14 ) (38 ) 199
106
93
88
Consolidated net income $ 152
$ 117
$ 35
30 % $ 621
$ 321
$ 300
93 %
Effective tax rate 12.9 % 24.2 % 24.3 % 24.9 %

~~QTD 2017 vs. QTD 2016~~



(Dollars in millions)	Q1 2018			Q1 2017			Change			% Change
Income before income taxes	$	221		$	503		$	(282	)	(56	)%
Provision for income taxes	24			155			(131		)	(85	)
Consolidated net income	$	197		$	348		$	(151	)	(43	)%
Effective tax rate	10.6		%	30.8		%

Our effective tax rate was ~~12.9%~~10.6% for ~~Q3 2017~~Q1 2018 compared to ~~24.2%~~30.8% in ~~Q3 2016. For Q3 2017, the~~Q1 2017. The variance from the U.S. federal ~~statutory~~effective tax rate of ~~35%~~21% in Q1 2018 was primarily ~~attributable to~~impacted by 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, and ~~excess~~the discrete tax ~~benefits related to share-based compensation. For Q3 2016,~~benefit associated with the recognition of prior year losses from our investment in Helix. The variance from the U.S. federal statutory tax rate of 35% in Q1 2017 was primarily ~~attributable to~~impacted by 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, partially offset by the ~~tax impact associated with the investments in our consolidated variable interest entities.~~

~~YTD 2017 vs. YTD 2016~~

Our effective tax rate was 24.3% in the first three quarters of 2017 compared to 24.9% for the first three quarters of 2016. For the first three quarters of 2017, the variance from the U.S. federal statutory tax rate of 35% was primarily attributable to 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, and excess tax benefits related to share-based compensation, partially offset by the discrete tax impact ~~of $150 million~~ from the gain on ~~the~~ deconsolidation of GRAIL. For the first three quarters of 2016, the variance from the U.S. federal statutory tax rate 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, partially offset by the tax impact associated with the investments in our consolidated variable interest entities.

Liquidity and Capital Resources

At ~~October~~April 1, ~~2017~~2018, we had approximately $~~1.4~~1.6 billion in cash and cash equivalents, of which approximately ~~$708~~$880 million was held by our foreign subsidiaries. Cash and cash equivalents held by Helix as of April 1, 2018 were $121 million. Cash and cash equivalents increased by ~~$619~~$335 million from ~~January 1,~~December 31, 2017, 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. Our ability to generate cash from operations provides us with the financial flexibility we need to meet operating, investing, and financing needs. ~~It is~~We currently do not expect our ~~intention to indefinitely reinvest all current and future~~ foreign earnings generated in 2018 to be indefinitely invested in the foreign ~~subsidiaries.~~jurisdictions.

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 ~~October~~April 1, ~~2017~~2018, we had $~~687~~813 million in short-term investments. ~~Short-term investments held by our foreign subsidiaries as of~~ ~~October 1, 2017~~ ~~were approximately $245 million.~~ Our short-term investments include marketable securities consisting of U.S. government-sponsored entities, corporate debt securities, and U.S. Treasury securities.

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~~near-term capital and operating needs for at least the next 12 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;

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;

potential early repayment of debt ~~obligations as a result of conversions;~~obligations;

the expansion needs of our facilities, including costs of leasing and building out additional facilities; ~~and~~

repurchases of our outstanding common ~~stock.~~stock; and

the one-time transition tax on earnings of certain foreign subsidiaries that were previously tax deferred in accordance with the Tax Cuts and Jobs Act (U.S. Tax Reform) enacted on December 22, 2017.

Our convertible senior notes due in 2019 and 2021 were not convertible as of ~~October~~April 1, ~~2017.~~2018. Our convertible senior notes due in 2019 are convertible at any time on or after March 15, 2019.

~~During Q1~~On May 4, 2017, ~~we used $101 million to repurchase our outstanding shares, completing the stock repurchase program authorized by~~ our Board of Directors ~~on July 28, 2016. On May 4, 2017, the Board of Directors~~ authorized ~~an additional~~a share repurchase program to repurchase $250 million of outstanding common stock. The repurchases may be completed under a

10b5-1 plan or at management’s discretion. ~~During Q3 2017, we used $75 million~~Authorizations to repurchase ~~shares~~$100 million of our common stock ~~under a 10b5-1 plan.~~remained available as of April 1, 2018.

Certain noncontrolling Helix investors may require Illumina to redeem ~~all~~certain noncontrolling interests in cash at the then approximate fair market value. Such redemption right is exercisable at the option of certain noncontrolling interest holders after January 1, 2021, provided that a bona fide pursuit of the sale of Helix has occurred and an initial public offering of Helix has not been completed. The fair value of the redeemable noncontrolling interests related to Helix as of ~~October~~April 1, ~~2017~~2018 was ~~$124~~$215 million.

We have ~~$86~~$80 million remaining in our capital commitment to the venture capital investment fund as of ~~October~~April 1, ~~2017.~~2018.

We expect that our revenue and the resulting ~~operating~~ income from operations, 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 2017			YTD 2016			Q1 2018		Q1 2017
Net cash provided by operating activities	$	581		$	517		$	255	$	168
Net cash provided by (used in) investing activities	101			(341		)
Net cash used in financing activities	(67		)	(151		)
Net cash provided by investing activities							12		163
Net cash provided by (used in) financing activities							67		(86		)
Effect of exchange rate changes on cash and cash equivalents	4			1			1		1
Net increase in cash and cash equivalents	$	619		$	26		$	335	$	246

Operating Activities

Net cash provided by operating activities in ~~the first three quarters of 2017~~Q1 2018 consisted of net income of ~~$621~~$197 million ~~less~~plus net adjustments of ~~$116~~$78 million partially offset by net changes in operating assets and liabilities of ~~$76~~$20 million. The primary non-cash adjustments to net income included depreciation and amortization expenses of $39 million, share-based compensation of $48 million, and accretion of debt discount of $8 million, partially offset by deferred income taxes of $11 million. Cash flow impact from changes in net operating assets and liabilities were primarily driven by a decrease in accrued liabilities and an increase in inventory, partially offset by a decrease in accounts receivable and increases in accounts payable and other long-term liabilities.

Net cash provided by operating activities in Q1 2017 consisted of net income of $348 million less net adjustments of $251 million partially offset by net changes in operating assets and liabilities of $71 million. The primary non-cash adjustments to net income included the gain on deconsolidation of GRAIL of $453 million, depreciation and amortization expenses of ~~$117~~$38 million, share-based compensation of ~~$123~~$50 million, deferred income tax of ~~$53~~$86 million, impairment of intangible assets of $23 million, and accretion of debt discount of ~~$23~~$7 million. Cash flow impact from changes in net operating assets and liabilities were driven by ~~increases~~an increase in accrued liabilities ~~other long-term liabilities and inventory.~~

Net cash provided by operating activities in the first three quarters of 2016 consisted of net income of $321 million plus net adjustments of $290 million partially offset by net changes in operating assets and liabilities of $94 million. The primary non-cash expenses added back to net income included depreciation and amortization expenses of $103 million, share-based compensation of $102 million, deferred income tax of $58 million, and accretion of debt discount of $22 million. Cash flow impact from changes in net operating assets included increases in inventory and other assets, and a decrease in ~~accrued liabilities and~~ accounts ~~payable, partially offset by an increase in other long-term liabilities, and decreases in accounts receivable and prepaid expenses.~~receivable.

Investing Activities

Net cash provided by investing activities in Q1 2018 totaled ~~$101 million for the first three quarters of 2017.~~$12 million. We purchased ~~$359~~$598 million of available-for-sale securities and ~~$495~~$703 million of our available-for-sale securities matured or were sold during the period. We invested $90 million in capital expenditures, primarily associated with our investment in facilities.

Net cash provided by investing activities in Q1 2017 totaled $163 million. We received $278 million from the sale of a portion of our ownership interest in GRAIL. In connection with the sale, we removed $52 million in cash from our condensed consolidated balance sheet as a result of the deconsolidation. We ~~paid $25 million for strategic investments and invested $234 million in capital expenditures, primarily associated with our investment in facilities.~~

~~Net cash used in investing activities totaled $341 million for the first three quarters of 2016. We~~ purchased ~~$679~~$61 million of available-for-sale securities and ~~$554~~$88 million of our available-for-sale securities matured or were sold during the period. We also ~~paid net cash of $18 million for acquisitions and~~ invested ~~$178~~$83 million in capital expenditures primarily associated with ~~facilities and the purchase of manufacturing, research, and development equipment.~~our investment in facilities.

Financing Activities

Net cash ~~used in~~provided by financing activities in Q1 2018 totaled $67 ~~million for the first three quarters of 2017. We used $176 million to repurchase shares of our common stock and $28 million to pay taxes related to net share settlement of equity awards.~~million. We received ~~$63~~$21 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 ~~$79~~$61 million. ~~Additionally, $7 million was used by Helix to repay financing obligations.~~

~~Net cash used in financing activities totaled $151 million for the first three quarters of 2016.~~ We used ~~$113 million to repurchase shares of our common stock, $76~~$13 million to pay taxes related to net share settlement of equity ~~awards, $29~~awards.

Net cash used in financing activities in Q1 2017 totaled $86 million. We used $101 million to repurchase our common stock and $22 million to pay ~~acquisition~~taxes related ~~contingent consideration, and $71 million~~ to ~~repay financing obligations.~~net share settlement of equity awards. We received ~~$47~~$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, ~~$5 million in proceeds from issuance of debt related to an outstanding line of credit held by Helix,~~ and ~~$6 million in proceeds from early exercises of equity awards from a subsidiary. Contributions~~contributions from noncontrolling interest owners were ~~$80~~$16 million.

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 three quarters of 2017,~~Q1 2018, 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 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 Management’s Discussion and Analysis of Financial Condition and Results of Operations in Item 7 of our Annual Report on Form 10-K for the fiscal year ended ~~January 1,~~December 31, 2017 have the greatest potential impact on our financial statements, so we consider them to be our critical accounting policies and estimates. Other than the adoption of ASU ~~2016-09,~~2014-09, ~~Compensation - Stock Compensation~~Revenue from Contracts with Customers (Topic ~~718)~~606) as described in note 2“1. Summary of ~~the~~Significant Accounting Policies” in Part I, Item 1, Notes to ~~the~~ Condensed Consolidated Financial Statements provided in this ~~Quarterly Report on Form 10-Q,~~report, there were no material changes to our critical accounting policies and estimates during ~~the first three quarters of 2017.~~Q1 2018.

Recent Accounting Pronouncements

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

Consideration Regarding Forward-Looking Statements

This Quarterly Report on Form 10-Q contains, ~~forward-looking~~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 ~~that involve risks and uncertainties,~~can be identified by words such ~~as statements of our plans, strategies, objectives, expectations, intentions, and adequacy of resources. Words such as~~as: “anticipate,” “intend,” “plan,” “goal,” “seek,” “believe,” “continue,” “project,” “estimate,” “expect,” ~~“intend,~~“strategy,” “future,” “likely,” “may,~~” “plan,~~” “potential,” “predict,” ~~“project,~~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 ~~our~~any acquired technologies with our existing ~~technology, the commercial launch of new products, the entry into new business segments or markets,~~technology; and ~~the duration which our existing cash~~

other expectations, beliefs, plans, strategies, anticipated developments, and other ~~resources is expected to fund our operating activities.~~

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 ~~known and unknown~~inherent uncertainties, risks, and ~~uncertainties~~changes in circumstances that are difficult to predict and many of which are ~~based~~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 ~~potentially inaccurate assumptions~~any of these forward-looking statements. Important factors that could cause our actual results and financial condition to differ materially from those ~~expected or implied by~~indicated in the ~~forward-looking statements. Among the important factors that could cause actual results to differ materially from those in any~~ forward-looking statements include, among others, the following:

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 timing and mix of customer orders among our products and services;

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 and beliefs regarding prospects and growth for the business and its markets;

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 ~~January 1,~~December 31, 2017,, 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 ~~these~~any forward-looking ~~statements,~~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 ~~the~~any current financial ~~quarter. Accordingly, you should not unduly rely on these forward-looking statements, which speak only~~quarter, in each case whether as a result of ~~the date of this Quarterly Report on Form 10-Q.~~new information, future developments, or otherwise.

Item 3. Quantitative and Qualitative Disclosures About Market Risk.

There were no substantial changes to our market risks in the ~~nine~~three months ended ~~October~~April 1, ~~2017~~2018, when compared to the disclosures in Item 7A of our Annual Report on Form 10-K for the fiscal year ended ~~January 1,~~December 31, 2017.

Item 4. 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.

During ~~Q3 2017,~~Q1 2018, we continued to monitor and evaluate the operating effectiveness of key controls. 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

Item 1. 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 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 results 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. The amount of ultimate loss may differ from these estimates. Each matter presents its own unique circumstances, and prior litigation does not necessarily provide a reliable basis on which to predict the outcome, or range of outcomes, in any individual proceeding. Because of the uncertainties related to the occurrence, amount, and range of loss on any pending litigation or claim, we are currently unable to predict their ultimate outcome, and, with respect to any pending litigation or claim where no liability has been accrued, to make a meaningful estimate of the reasonably possible loss or range of loss that could result from an unfavorable outcome. In the event ~~that~~ opposing litigants or claims ultimately succeed at trial and any subsequent appeals on their claims, any potential loss or charges in excess of any established accruals, individually or in the aggregate, could have a material adverse effect on our business, financial condition, results of operations, and/or cash flows in the period in which the unfavorable outcome occurs or becomes probable, and potentially in future periods.

Item 1A. Risk Factors.

Our business is subject to various risks, including those described in Item 1A of our Annual Report on Form 10-K for the fiscal year ended ~~January 1,~~December 31, 2017, which we strongly encourage you to review. There have been no material changes from the risk factors disclosed in Item 1A of our Form 10-K.

Item 2. Unregistered Sales of Equity Securities and Use of Proceeds.

Unregistered Sales of Equity Securities

~~None during the quarterly period ended~~ ~~October 1, 2017~~.None.

Purchases of Equity Securities by the Issuer

~~The following table summarizes shares repurchased pursuant to our share repurchase program during the three months ended October 1, 2017 (in thousands except for price per share):~~

Period

Total Number
of Shares
Purchased (1)

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
July 3, 2017 - July 30, 2017 —
—
—
$ 250,001
July 31, 2017 - August 27, 2017 385
$ 194.85
385
$ 175,001
August 28, 2017 - October 1, 2017 —
—
—
$ 175,001
Total 385
$ 194.85
385
$ 175,001

~~___________~~

~~(1) All shares purchased during the three months ended October 1, 2017, were made in open-market transactions under a Rule 10b5-1 plan.~~

None.

Item 3. Defaults Upon Senior Securities.

None.

Item 4. Mine Safety Disclosures.

Not applicable.

Item 5. Other Information.

None.

Item 6. Exhibits.



Exhibit Number		Description of Document

31.1		Certification of Francis A. deSouza pursuant to Section 302 of the Sarbanes-Oxley Act of 2002.

31.2		Certification of Sam A. Samad pursuant to Section 302 of the Sarbanes-Oxley Act of 2002.

32.1		Certification of Francis A. deSouza pursuant to 18 U.S.C. Section 1350, as adopted pursuant to Section 906 of the Sarbanes-Oxley Act of 2002.

32.2		Certification of Sam A. Samad pursuant to 18 U.S.C. Section 1350, as adopted pursuant to Section 906 of the Sarbanes-Oxley Act of 2002.

~~101.INS~~10.1		Third Amendment to Lease between BMR-Lincoln Center LP and Illumina, dated January 18, 2018

101.INS		XBRL Instance 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

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:	~~October~~April 25, ~~2017~~2018		/s/ SAM A. SAMAD
			Sam A. Samad Senior Vice President and Chief Financial Officer

3231



	Goodwill
Balance as of January 1, 2017	$	776
GRAIL deconsolidation	(5		)
Balance as of October 1, 2017	$	771



	Redeemable Noncontrolling Interests
Balance as of January 1, 2017	$	44
Amount released from escrow	79
Vesting of redeemable equity awards	12
Net loss attributable to noncontrolling interests	(30		)
Adjustment up to the redemption value	30
Deconsolidation of GRAIL	(11		)
Balance as of October 1, 2017	$	124



Period	Total Number of Shares Purchased (1)	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
July 3, 2017 - July 30, 2017	—	—		—	$	250,001
July 31, 2017 - August 27, 2017	385	$	194.85	385	$	175,001
August 28, 2017 - October 1, 2017	—	—		—	$	175,001
Total	385	$	194.85	385	$	175,001