Indicate by check mark whether the registrant (1) has filed all reports required to be filed by Section 13 or 15(d) of the Securities Exchange Act of 1934 during the preceding 12 months (or for such shorter period that the registrant was required to file such reports), and (2) has been subject to such filing requirements for the past 90 days. Yes ☒ No ☐

Indicate by check mark whether the registrant has submitted electronically every Interactive Data File required to be submitted pursuant to Rule 405 of Regulation S-T (§ 232.405 of this chapter) during the preceding 12 months (or for such shorter period that the registrant was required to submit such files). Yes ☒ No ☐

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

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 13(a) of the Exchange Act. ☒

Indicate by check mark whether the registrant is a shell company (as defined in Rule 12b-2 of the Exchange Act). Yes ☐ No ☒

As of ~~May 7,~~November 5, 2020, the registrant had ~~23,351,598~~31,786,486 shares of common stock, $0.0001 par value per share, outstanding.

This Quarterly Report on Form 10-Q contains forward-looking statements. All statements other than statements of historical fact are “forward-looking statements” for purposes of this Quarterly Report on Form 10-Q. In some cases, you can identify forward-looking statements by terminology such as “believe,” “may,” “will,” “estimate,” “continue,” “anticipate,” “intend,” “could,” “would,” “project,” “plan,” “expect,” or similar expressions, or the negative or plural of these words or expressions. These forward-looking statements include statements concerning the following:

These statements are only current predictions and are subject to known and unknown risks, uncertainties and other factors that may cause our or our industry’s actual results, levels of activity, performance or achievements to be materially different from those anticipated by the forward-looking statements. We discuss many of these risks in greater detail under Part I, Item 1A. Risk Factors in our Annual Report on Form 10-K for the year ended December 31, 2019 filed with the Securities and Exchange Commission, or SEC, on March 16, 2020 and under Part II, Item 1A. Risk Factors in ~~this~~our Quarterly Report on Form 10-Q for the quarterly period ended March 31, 2020 filed with the SEC on May 11, 2020, each as may be amended or updated in ~~our Quarterly Reports on Form 10-Q.~~subsequent filings with the SEC. In particular, ~~while we expect~~ the impact of the ongoing COVID-19 pandemic ~~to adversely affect our business operations and financial results, the extent of the impact~~ on our ability to progress with our research, development, manufacturing and regulatory efforts, including our plans to ~~resolve the~~initiate, advance and complete our SUNRISE Phase 1/2 clinical ~~hold placed by the FDA on the IND~~trial for LB-001 in MMA, and the value of and market for our common stock, will depend on future developments that are highly uncertain and cannot be predicted with confidence at this time, such as the ultimate duration of the pandemic, travel restrictions, quarantines, social distancing and business closure requirements in the United States and in other countries, and the effectiveness of actions taken globally to contain and treat the disease. Any forward-looking statement in this Quarterly Report on Form 10-Q reflects our current view with respect to future events and is subject to these and other risks, uncertainties and assumptions relating to our operations, results of operations, industry and future growth. Given these uncertainties, you should not rely on these forward-looking statements as predictions of future events. We cannot guarantee future results, levels of activity, performance or achievements. Except as required by law, we assume no obligation to update or revise these forward-looking statements for any reason, even if new information becomes available in the future.

Unless the context otherwise requires, the terms “LogicBio,” “LogicBio Therapeutics, Inc.,” the “Company,” “we,” “us,” “our” and similar references in this Quarterly Report on Form 10-Q refer to LogicBio Therapeutics, Inc. and its subsidiaries.

	March 31, 2020			December 31, 2019			September 30, 2020			December 31, 2019
ASSETS
CURRENT ASSETS:
Cash and cash equivalents	$	43,153		$	33,107		$	32,285		$	33,107
Short-term investments		—			17,540			—			17,540
Prepaid expenses and other current assets		3,038			2,045			1,261			2,045
Restricted cash		146			146			—			146
Total current assets		46,337			52,838			33,546			52,838
Property and equipment, net		1,591			1,696			1,690			1,696
Restricted cash		622			622			622			622
Operating lease right-of-use asset		199			504			5,948			504
TOTAL ASSETS	$	48,749		$	55,660		$	41,806		$	55,660
LIABILITIES AND STOCKHOLDERS’ EQUITY
CURRENT LIABILITIES:
Accounts payable	$	2,181		$	624		$	1,035		$	624
Accrued expenses and other current liabilities		1,934			2,939			2,184			2,435
Deferred revenue		1,065			—
Operating lease liabilities								1,091			504
Current portion of long-term debt								1,089			—
Total current liabilities		5,180			3,563			5,399			3,563
Long-term debt, net of issuance costs and discount		9,862			9,810			8,877			9,810
Operating lease liabilities, net of current portion								5,239			—
Total liabilities		15,042			13,373			19,515			13,373
COMMITMENTS AND CONTINGENCIES (Note 14)
STOCKHOLDERS’ EQUITY:
Preferred stock, par value of $0.0001 per share; 25,000,000 shares authorized; no shares issued and outstanding as of March 31, 2020 and December 31, 2019.		—			—
Common stock, par value of $0.0001 per share; 175,000,000 shares authorized; 23,216,661 and 23,036,943 shares issued and outstanding as of March 31, 2020 and December 31, 2019, respectively		3			3
Preferred stock, par value of $0.0001 per share; 25,000,000 shares authorized; 0 shares issued and outstanding as of September 30, 2020 and December 31, 2019.								—			—
Common stock, par value of $0.0001 per share; 175,000,000 shares authorized; 23,685,161 and 23,036,943 shares issued and outstanding as of September 30, 2020 and December 31, 2019, respectively								3			3
Additional paid-in capital		110,529			109,640			115,379			109,640
Accumulated other comprehensive income		—			14			—			14
Accumulated deficit		(76,825	)		(67,370	)		(93,091	)		(67,370	)
Total stockholders’ equity		33,707			42,287			22,291			42,287
TOTAL LIABILITIES AND STOCKHOLDERS’ EQUITY	$	48,749		$	55,660		$	41,806		$	55,660

	Three Months Ended March 31,						Three Months Ended September 30,						Nine Months Ended September 30,
	2020			2019			2020			2019			2020			2019
REVENUE
Service revenue	$	1,021		$	—		$	926		$	—		$	2,912		$	—
Total revenue		1,021			—			926			—			2,912			—
OPERATING EXPENSES
Research and development		7,173			5,486			5,492			8,858			18,560			22,278
General and administrative		3,192			2,632			3,200			2,175			9,421			7,331
Total operating expenses		10,365			8,118			8,692			11,033			27,981			29,609
LOSS FROM OPERATIONS		(9,344	)		(8,118	)		(7,766	)		(11,033	)		(25,069	)		(29,609	)
OTHER INCOME (EXPENSE), NET:
Interest income		167			443			2			389			179			1,243
Interest expense		(272	)		—			(276	)		(271	)		(821	)		(271	)
Other expense, net		(6	)		—
Total other income (expense), net		(111	)		443
Other income (expense), net								1			(3	)		(10	)		(4	)
Total other (expense) income, net								(273	)		115			(652	)		968
Loss before income taxes		(9,455	)		(7,675	)		(8,039	)		(10,918	)		(25,721	)		(28,641	)
Income tax provision		—			(22	)		—			—			—			(22	)
Net loss	$	(9,455	)	$	(7,697	)	$	(8,039	)	$	(10,918	)	$	(25,721	)	$	(28,663	)
Net loss per share—basic and diluted	$	(0.41	)	$	(0.34	)	$	(0.34	)	$	(0.48	)	$	(1.10	)	$	(1.27	)
Weighted-average common stock outstanding—basic and diluted		23,175,802			22,313,129			23,599,052			22,677,205			23,367,804			22,491,282

	Three Months Ended March 31,						Three Months Ended September 30,						Nine Months Ended September 30,
	2020			2019			2020			2019			2020			2019
Net loss	$	(9,455	)	$	(7,697	)	$	(8,039	)	$	(10,918	)	$	(25,721	)	$	(28,663	)
Other comprehensive income:
Unrealized gain on investments		—			9
Unrealized (loss) gain on investments								—			(16	)		—			20
Foreign currency translation adjustment		—			3			—			2			—			8
Comprehensive loss	$	(9,455	)	$	(7,685	)	$	(8,039	)	$	(10,932	)	$	(25,721	)	$	(28,635	)


	Common Stock $0.0001 Par Value				Additional Paid-in		Accumulated Other Comprehensive			Accumulated			Total Stockholders’			Common Stock $0.0001 Par Value				Additional Paid-in		Accumulated Other Comprehensive			Accumulated			Total Stockholders’
	Shares		Amount		Capital		(Loss) Income			Deficit			Equity			Shares		Amount		Capital		(Loss) Income			Deficit			Equity
BALANCE, January 1, 2019		22,188,393	$	3	$	107,473	$	(9	)	$	(27,242	)	$	80,225			22,188,393	$	3	$	107,473	$	(9	)	$	(27,242	)	$	80,225
Vesting of restricted stock		160,337		—		—		—			—			—			160,337		—		—		—			—			—
Unrealized gain on investments		—		—		—		9			—			9			—		—		—		9			—			9
Foreign currency translation adjustment		—		—		—		3			—			3			—		—		—		3			—			3
Stock-based compensation expense		—		—		276		—			—			276			—		—		276		—			—			276
Net loss		—		—		—		—			(7,697	)		(7,697	)		—		—		—		—			(7,697	)		(7,697	)
BALANCE, March 31, 2019		22,348,730	$	3	$	107,749	$	3		$	(34,939	)	$	72,816			22,348,730		3		107,749		3			(34,939	)		72,816
Vesting of restricted stock																	160,332		—		—		—			—			—
Exercise of options																	13,454		—		82		—			—			82
Unrealized gain on investments																	—		—		—		27			—			27
Foreign currency translation adjustment																	—		—		—		3			—			3
Stock-based compensation expense																	—		—		531		—			—			531
Net loss																	—		—		—		—			(10,048	)		(10,048	)
BALANCE, June 30, 2019																	22,522,516		3		108,362		33			(44,987	)		63,411
Vesting of restricted stock																	160,332		—		—		—			—			—
Exercise of options																	83,082		—		61		—			—			61
Issuance of warrants related to loan and security agreement																	—		—		136		—			—			136
Unrealized loss on investments																	—		—		—		(16	)		—			(16	)
Foreign currency translation adjustment																	—		—		—		2			—			2
Stock-based compensation expense																	—		—		522		—			—			522
Net loss																	—		—		—		—			(10,918	)		(10,918	)
BALANCE, September 30, 2019																	22,765,930	$	3	$	109,081	$	19		$	(55,905	)	$	53,198

BALANCE, January 1, 2020		23,036,943	$	3	$	109,640	$	14		$	(67,370	)	$	42,287			23,036,943	$	3	$	109,640	$	14		$	(67,370	)	$	42,287
Vesting of restricted stock		160,340		—		—		—			—			—			160,340		—		—		—			—			—
Exercise of options		19,378		—		84		—			—			84			19,378		—		84		—			—			84
Realized gain on investments		—		—		—		(14	)		—			(14	)		—		—		—		(14	)		—			(14	)
Stock-based compensation expense		—		—		805		—			—			805			—		—		805		—			—			805
Net loss		—		—		—		—			(9,455	)		(9,455	)		—		—		—		—			(9,455	)		(9,455	)
BALANCE, March 31, 2020		23,216,661	$	3	$	110,529	$	—		$	(76,825	)	$	33,707			23,216,661		3		110,529		—			(76,825	)		33,707
Vesting of restricted stock																	18,642		—		—		—			—			—
Issuance of common stock, net of issuance costs of $33																	269,540		—		1,907		—			—			1,907
Stock-based compensation expense																	—		—		769		—			—			769
Net loss																	—		—		—		—			(8,227	)		(8,227	)
BALANCE, June 30, 2020																	23,504,843		3		113,205		—			(85,052	)		28,156
Vesting of restricted stock																	13,381		—		—		—			—			—
Issuance of common stock, net of issuance costs of $41																	166,937		—		1,320		—			—			1,320
Stock-based compensation expense																	—		—		854		—			—			854
Net loss																	—		—		—		—			(8,039	)		(8,039	)
BALANCE, September 30, 2020																	23,685,161	$	3	$	115,379	$	—		$	(93,091	)	$	22,291

	Three Months Ended March 31,						Nine Months Ended September 30,
	2020			2019			2020			2019
CASH FLOWS FROM OPERATING ACTIVITIES:
Net loss	$	(9,455	)	$	(7,697	)	$	(25,721	)	$	(28,663	)
Adjustments to reconcile net loss to net cash used in operating activities:
Depreciation expense		105			39			349			189
Net amortization of premiums and discounts on investments		26			(95	)		26			(371	)
Stock-based compensation expense		805			276			2,428			1,329
Non-cash interest expense		52			—			156			50
Non-cash lease expense		305			274			1,366			865
Changes in operating assets and liabilities:
Prepaid expenses and other current assets		(993	)		(498	)		917			(354	)
Other assets		—			(57	)
Accounts payable		1,557			201			411			779
Accrued expenses and other current liabilities		(1,005	)		(675	)		(1,368	)		(872	)
Deferred revenue		1,065			—
Net cash used in operating activities		(7,538	)		(8,232	)		(21,436	)		(27,048	)
CASH FLOWS FROM INVESTING ACTIVITIES:
Purchase of investments		—			(44,562	)		—			(58,490	)
Maturities of investments		17,500			—			17,500			34,400
Purchase of property and equipment		—			(247	)		(343	)		(1,084	)
Net cash provided by (used in) investing activities		17,500			(44,809	)		17,157			(25,174	)
CASH FLOWS FROM FINANCING ACTIVITIES:
Proceeds from borrowings under loan and security agreement, net of issuance costs								—			9,845
Proceeds from exercise of stock options		84			—			84			143
Net proceeds from stock issuances								3,227			—
Net cash provided by financing activities		84			—			3,311			9,988
Effect on foreign exchange rates on cash and cash equivalents		—			5						8
NET INCREASE (DECREASE) IN CASH, CASH EQUIVALENTS AND RESTRICTED CASH		10,046			(53,036	)
NET DECREASE IN CASH, CASH EQUIVALENTS AND RESTRICTED CASH								(968	)		(42,226	)
Cash, cash equivalents and restricted cash at beginning of year		33,875			81,052			33,875			81,052
Cash, cash equivalents and restricted cash at end of period	$	43,921		$	28,016		$	32,907		$	38,826
RECONCILIATION OF CASH, CASH EQUIVALENTS AND RESTRICTED CASH
Cash and cash equivalents	$	43,153		$	27,870		$	32,285		$	38,680
Short-term restricted cash		146			146			—			146
Long-term restricted cash		622			—			622			—
Total cash, cash equivalents and restricted cash	$	43,921		$	28,016		$	32,907		$	38,826
SUPPLEMENTAL DISCLOSURE OF CASH FLOW INFORMATION:
Cash paid for interest	$	220		$	—		$	666		$	221
Cash paid for income taxes	$	—		$	31		$	—		$	6
SUPPLEMENTAL DISCLOSURE OF NON-CASH ACTIVITIES:
Right-of-use assets obtained in exchange for operating lease obligation	$	—		$	1,323		$	6,428		$	1,323
Property and equipment purchases in accounts payable and accrued expenses	$	—		$	81		$	—		$	24
Deferred financing costs in accounts payable and accrued expenses							$	133		$	—

LogicBio Therapeutics, Inc. (“LogicBio” or the “Company”) was incorporated in 2014 as a Delaware corporation. Its principal offices are in Lexington, Massachusetts. LogicBio is a company dedicated to extending the reach of genetic medicine with pioneering targeted delivery platforms. The Company’s proprietary genome editing technology platform, GeneRide, enables the site-specific integration of a therapeutic transgene without nucleases or exogenous promoters by harnessing the native process of homologous recombination. LogicBio is developing LB-001, a wholly owned genome editing program leveraging GeneRide for the treatment of methylmalonic acidemia (“MMA”). In addition, the Company has a research collaboration with Takeda Pharmaceutical Company Limited (“Takeda”) to develop LB-301, an investigational therapy leveraging GeneRide for the treatment of the rare pediatric disease Crigler-Najjar syndrome (“CN”).

LogicBio is also developing a Next Generation Capsid platform for use in gene editing and gene therapy. At the American Society of Gene & Cell Therapy (“ASGCT”) conference in May 2020, data was presented showing that the capsids deliver highly efficient functional transduction of human hepatocytes in a humanized mouse model. The data also showed the capsids exhibited improved manufacturability with low levels of pre-existing neutralizing antibodies in human samples. Based on this data, the Company believes the top-tier capsid candidates from this effort demonstrated the potential to achieve significant improvements over benchmark adeno-associated viruses (“AAVs”) that are currently in clinical development. The Company is ~~a genome editing company focused~~developing these highly potent vectors for internal development candidates and potentially for business development collaborations.

Based on the Company’s GeneRide technology, LogicBio is developing ~~medicines~~its lead product candidate, LB-001, to ~~durably~~ treat ~~rare diseases~~MMA in pediatric patients with ~~significant unmet medical need, using GeneRide~~^™~~, its proprietary technology platform. GeneRide technology~~MMA. The SUNRISE trial is a multi-center, open-label, Phase 1/2 clinical trial designed to ~~precisely~~assess the safety and ~~stably integrate corrective genes into~~tolerability of a ~~patient’s genome~~single intravenous infusion of LB-001 in pediatric patients with MMA characterized by methylmalonyl-CoA mutase gene (MMUT) mutations. Six leading centers in the United States are expected to ~~provide a durable therapeutic effect. The Company~~participate in the SUNRISE Phase 1/2 trial.

LogicBio believes that achieving clinical proof of concept in an inherited liver disease such as MMA will validate the Company’s platform technology, including its potential application to other organs and diseases. In addition to MMA and CN, LogicBio has demonstrated proof of concept of its ~~therapeutic~~ platform in hemophilia B and alpha-1-antitrypsin deficiency (“A1ATD”) animal ~~models for a number of diseases and is focusing on its lead product candidate, LB-001, for the treatment of Methylmalonic Acidemia (“MMA”), a life-threatening~~ disease ~~that presents at birth.~~

In January 2020, the Company announced the submission of an investigational new drug application (“IND”) to support the initiation of a Phase 1/2 clinical trial for LB-001 in pediatric patients with MMA, which the FDA has placed on clinical hold. Subsequently, the Company received a letter from the FDA specifying its questions related to the clinical hold. The clinical hold was based on questions that were clinical and nonclinical in nature, including questions related to the studies conducted for the Company’s IND filing, but did not relate to chemistry, manufacturing, and controls.models. The Company expects to ~~have interactions with~~select future product candidates from these and other genetic diseases addressed by targeting the ~~FDA regarding their questions through mid-2020, after which~~liver initially, and later by targeting the ~~Company plans to provide guidance on the anticipated timing for the initiation of the Phase 1/2 clinical trial for LB-001.~~central nervous system, or CNS, and muscle.

Since its inception, the Company has devoted the majority of its efforts to business planning, research and development, developing markets, raising capital, and recruiting management and technical staff. The Company is subject to a number of risks similar to those of other companies conducting high-risk, early-stage research and development of product candidates. Principal among these risks are a dependency on key individuals and intellectual property, competition from other products and companies, and the technical risks associated with the successful research, development and clinical manufacturing of its product candidates. The Company’s success is dependent upon its ability to continue to raise additional capital in order to fund ongoing research and development, meet its obligations and, ultimately, obtain regulatory approval of its products, successfully commercialize its products, generate revenue and attain profitable operations.

The Company is closely monitoring the COVID-19 pandemic in order to ~~ensure~~promote the safety of its personnel and to continue advancing its research and development activities. Since mid-March, the Company has ceased all business travel and most of its non-laboratory employees have been working ~~remotely, and~~remotely. After being limited to working in shifts on-premises through early July, the ~~Company has arranged~~Company’s laboratory employees have returned to ~~work in shifts~~normal working schedules on-premises to ~~continue~~conduct in-house research and development ~~activities.~~activities with social distancing and other protective measures. The Company plans to maintain these or similar restrictions until it believes employees can fully resume such activities in accordance with federal, state and local requirements and guidelines.

The COVID-19 pandemic did not have a material impact on the Company’s results of operations, cash flow and financial position as of and for the three and nine months ended ~~March 31,~~September 30, 2020. However, the full extent to which the COVID-19 pandemic will directly or indirectly impact the Company’s business, results of operations and financial position will depend on future developments that are uncertain and cannot be accurately predicted.

~~During~~The Company has had recurring losses and incurred a loss of $25,721 during the ~~years~~nine months ended ~~December 31, 2019 and 2018, the Company incurred net losses of $40,128 and $17,621, respectively, and reported~~September 30, 2020. Net cash used in operations ~~totaling $38,750 and $15,267, respectively. In addition, as of December 31, 2019,~~for the ~~Company had an accumulated deficit of $67,370.~~nine months ended September 30, 2020 was $21,436. The Company expects to continue to generate operating losses and use cash in operations for the foreseeable future. As of ~~March 31,~~September 30, 2020, the Company had cash and cash equivalents of ~~$43,153 which management~~$32,285. In addition, on October 5, 2020, the Company completed a follow-on offering of its common stock resulting in net proceeds of approximately $45,190. The Company believes that its cash and cash equivalents at September 30, 2020, plus the net proceeds from the October 2020 follow-on offering, will be sufficient to fund its operating expenses and capital expenditure requirements ~~through~~for at least the second quarter of 2021. However, based on the Company’s operating losses since inception, the expectation of continued operating losses for the foreseeable future, and the need to raise additional capital to finance its future operations, it has been deemed there is substantial doubt about the Company’s ability to continue as a going concern within one yearnext twelve months from the date these ~~condensed consolidated~~ financial statements are ~~issued.~~issuedand therefore the conditions raising substantial doubt raised in prior periods has been alleviated.

The Company will require substantial additional capital to fund its research and development and ongoing operating expenses. Management’s plans to mitigate this risk include raising additional capital through equity or debt financings, or through

strategic transactions. These plans may also include the possible deferral of certain operating expenses unless and until additional capital is received. There can be no assurance that the Company will be successful in raising additional capital or that such capital, if available, will be on terms that are acceptable to the Company, or that the Company will be successful in deferring certain operating expenses. While there can be no assurance the Company will be able to successfully reduce operating expenses or raise additional capital, management believes its historical success in managing cash flows and obtaining capital will continue in the foreseeable future.

The accompanying condensed consolidated financial statements have been prepared on a going concern basis, which contemplates the realization of assets and satisfaction of liabilities in the ordinary course of business. The condensed consolidated financial statements do not include any adjustments relating to the recoverability and classification of recorded asset amounts or the amounts and classification of liabilities that might result from the outcome of this uncertainty.

The accompanying condensed consolidated financial statements have been prepared by the Company in conformity with accounting principles generally accepted in the United States of America (“U.S. GAAP”) and pursuant to the rules and regulations of the Securities and Exchange Commission (“SEC”) for interim financial statements. Certain information and footnote disclosures normally included in financial statements prepared in accordance with U.S. GAAP have been condensed or omitted pursuant to such rules and regulations. However, the Company believes that the disclosures are adequate to make the information presented not misleading. These condensed consolidated financial statements should be read in conjunction with the Company’s audited consolidated financial statements and the notes thereto included in the Company’s Annual Report on Form 10-K for the year ended December 31, 2019, filed with the SEC on March 16, 2020.

The unaudited interim condensed consolidated financial statements have been prepared on the same basis as the audited consolidated financial statements. In the opinion of management, the accompanying unaudited interim condensed consolidated financial statements contain all adjustments which are necessary for a fair statement of the Company’s financial position as of ~~March 31,~~September 30, 2020, consolidated results of operations for the three and nine months ended ~~March 31,~~September 30, 2020 and 2019 and cash flows for the ~~three~~nine months ended ~~March 31, 2020.~~September 30, 2020 and 2019. Such adjustments are of a normal and recurring nature. The results of operations for the three and nine months ended ~~March 31,~~September 30, 2020 are not necessarily indicative of the results of operations that may be expected for the year ending December 31, 2020.

The Company’s significant accounting policies are disclosed in the audited consolidated financial statements and the notes thereto, which are included in the Company’s Annual Report on Form 10-K for the year ended December 31, 2019, filed with the SEC on March 16, 2020. Since the date of those financial statements, there have been no material changes to its significant accounting policies other than the Company’s significant accounting policy over revenue recognition under ASC 606 (defined below) which is discussed in this note.

To date, the Company’s only revenue has consisted of service revenue, all of which is attributable to research cost reimbursement under the Company’s January 2020 research agreement with Takeda ~~Pharmaceutical Company Limited (“Takeda”)~~ for the development of product candidate LB-301 to treat ~~Crigler-Najjar Syndrome~~CN (the “Takeda Agreement”). The Company has not generated any revenue from product sales and does not expect to generate any revenue from product sales for the foreseeable future.

The Company recognizes revenue in accordance with Accounting Standards Codification (“ASC”) Topic 606, Revenue from Contracts with Customers (“ASC 606”). ASC 606 applies to all contracts with customers, except for contracts that are within the scope of other standards, such as leases, insurance, collaboration arrangements and financial instruments. Under ASC 606, the Company recognizes revenue when its customer obtains control of promised goods or services, in an amount that reflects the consideration the Company expects to receive in exchange for those goods or services. To determine revenue recognition for arrangements that an entity determines are within the scope of ASC 606, the Company performs the following five steps:

If a contract is determined to be within the scope of ASC 606 at inception, the Company assesses the goods or services promised within such contract, determines which of those goods and services are performance obligations, and assesses whether each promised good or service is distinct. The Company may provide options to additional items in such arrangements, which are accounted for as separate contracts when the customer elects to exercise such options, unless the option provides a material right to the customer. The Company determines transaction price based on the amount of consideration the Company expects to receive for transferring the promised goods or services in the contract. Consideration may be fixed, variable, or a combination of both. The Company then allocates the transaction price to each performance obligation based on the relative standalone selling price and recognizes as revenue the amount of the transaction price that is allocated to the respective performance obligation when (or as) control is transferred to the customer and the performance obligation is satisfied.

Amounts received prior to satisfying the revenue recognition criteria are recorded as deferred revenue in the Company’s condensed consolidated balance sheets. If the related performance obligation is expected to be satisfied within the next twelve months this will be classified in current liabilities. Amounts recognized as revenue prior to receipt are recorded as contract assets in the Company's balance sheets. If the Company expects to have an unconditional right to receive the consideration in the next twelve months, this will be classified in current assets. A net contract asset or liability is presented for each contract with a customer.

On January 1, 2020, the Company adopted Financial Accounting Standards Board (“FASB”) Accounting Standards Update (“ASU”) 2016-13, Measurement of Credit Losses on Financial Instruments. This ASU requires that credit losses be reported using an expected losses model rather than the incurred losses model that ~~is currently~~was previously used, and establishes additional disclosures related to credit risks. For available-for-sale debt securities with unrealized losses, the standard requires allowances to be recorded instead of reducing the amortized cost of the investment. The adoption of this standard did not have a material impact on the Company’s condensed consolidated financial statements and related disclosures.

From time to time, new accounting pronouncements are issued by the FASB or ~~changes to accounting pronouncements during~~other standard setting bodies that are adopted by the ~~three months ended March 31, 2020,~~Company as ~~compared to the recent accounting pronouncements described in Note 2~~ of the specified effective date. The Company believes that the impact of recently issued standards that are not yet effective will not have a material impact on the Company’s ~~Annual Report~~consolidated financial statements upon adoption.

In March 2020, the FASB issued ASU 2020-04, Facilitation of the Effects of Reference Rate Reform on ~~Form 10-K~~Financial Reporting (Topic 848). This ASU provides optional expedients and exceptions for applying U.S. GAAP to transactions affected by reference rate (e.g., LIBOR) reform if certain criteria are met, for a limited period of time to ease the ~~year ended~~potential burden in accounting for (or recognizing the effects of) reference rate reform on financial reporting. The ASU is effective as of March 12, 2020 through December 31, 2022. The Company will evaluate transactions or contract modifications, including any related to its July 2019 loan and security agreement which ~~could be~~uses LIBOR as a reference rate, occurring as a result of reference rate reform and determine whether to apply the optional guidance on an ongoing basis. The ASU is currently not expected to ~~materially~~have a material impact on the Company’s ~~unaudited~~ condensed consolidated financial ~~statements.~~statements and related disclosures.

The following tables present information about the Company’s financial assets measured at fair value on a recurring basis and indicate the level of the fair value hierarchy utilized to determine such fair values:

Description	March 31, 2020		Quoted Prices in Active Markets for Identical Assets (Level 1)		Significant Other Observable Inputs (Level 2)		Significant Other Observable Inputs (Level 3)		September 30, 2020		Quoted Prices in Active Markets for Identical Assets (Level 1)		Significant Other Observable Inputs (Level 2)		Significant Other Observable Inputs (Level 3)
Assets
Money market funds and other cash equivalents	$	43,153	$	43,153	$	—	$	—	$	30,785	$	30,785	$	—	$	—
Total financial assets	$	43,153	$	43,153	$	—	$	—	$	30,785	$	30,785	$	—	$	—

When developing fair value estimates, the Company maximizes the use of observable inputs and minimizes the use of unobservable inputs. When available, the Company uses quoted market prices to measure fair value. The valuation technique used to measure fair value for the Company's Level 1 and Level 2 assets is a market approach, using prices and other relevant information generated by market transactions involving identical or comparable assets. If market prices are not available, the fair value measurement is based on models that use primarily market-based parameters including yield curves, volatilities, credit ratings and currency rates. In certain cases where market rate assumptions are not available, the Company is required to make judgments about assumptions market participants would use to estimate the fair value of a financial instrument.

The Company did not have any transfers of assets between Level 1 and Level 2 of the fair value measurement hierarchy during the ~~three~~nine months ended ~~March 31,~~September 30, 2020.

As of ~~March 31,~~September 30, 2020, the Company did ~~not~~0t hold any short-term or long-term investments.

As of December 31, 2019, the Company held available-for-sale investments which were included in short-term investments on the condensed consolidated balance sheet and summarized in the table below:

Certain short-term debt securities with original maturities of less than 90 days are included in cash and cash equivalents on the condensed consolidated balance sheet and are not included in the table above. As of December 31, 2019, all investments had a contractual maturity within one year.

Accrued expenses and other current liabilities at ~~March 31,~~September 30, 2020 and December 31, 2019 consisted of the following:

	March 31, 2020		December 31, 2019		September 30, 2020		December 31, 2019
Accrued compensation and benefits	$	551	$	1,155	$	1,003	$	1,155
Accrued professional services		959		1,004		977		1,004
Lease liabilities		199		504
Other		225		276		204		276
Total accrued expenses and other current liabilities	$	1,934	$	2,939	$	2,184	$	2,435

Accrued compensation and benefits consists primarily of accrued bonuses. Accrued professional services consists primarily of consulting services, legal services and services provided by contract research organizations (“CRO”) and contract manufacturing organizations (“CMO”).

On July 2, 2019 (the “Closing Date”), the Company entered into a loan and security agreement (the “Loan Agreement”), for term loans with Oxford Finance LLC (“Oxford”) and Horizon Technology Finance Corporation (“Horizon,” and, together with Oxford, the “Lenders”). The Loan Agreement allows the Company to borrow up to $20,000 issuable in two equal tranches (the “Term Loans”). On the Closing Date, the first tranche of $10,000 was drawn down by the Company (the “Term A Loan”). ~~The~~Pursuant to an amendment to the Loan Agreement entered into in September 2020, the second tranche of $10,000 will be available to the Company ~~through September 30, 2020, subject to~~until the earliest of (i) the date that is thirty (30) days immediately following the date by which certain ~~clinical~~development milestones and equity financing events shall have occurred, (ii) March 31, 2021 and (iii) the occurrence of an Event of Default (as defined in the Loan Agreement) (the “Term B Loan”).

The outstanding loan balance will accrue interest at the greater of (i) the rate of the one-month U.S. LIBOR rate plus 6.25% and (ii) 8.75%. The Loan Agreement provides for an interest only period until July 1, 2021, followed by ~~thirty-six~~NaN equal monthly payments of principal and interest continuing through June 1, 2024 (the “Maturity Date”). The Company has the option to prepay the outstanding balance prior to maturity, subject to a prepayment fee of 1.0% to 3.0% depending upon when the prepayment occurs. Upon repayment of the Term Loans, the Company is required to make a final payment to the Lenders equal to 4.5% of the original principal amount of the Term Loans funded which will be accrued by charges to interest expense over the term of the loans using the effective interest method.

In conjunction with the Loan Agreement, the Company issued 15,686 of common stock warrants (“Warrants”) to the Lenders at a per share exercise price of $12.75, a maximum contractual term of 10 years and exercisable immediately. The fair value of the Warrants was accounted for as a debt discount and calculated to be approximately $136 using the Black-Scholes method. The Company determined the Warrants met the criteria for equity classification, and, as such, the fair value of the Warrants is recorded as additional paid-in capital on the condensed consolidated balance sheets. Finally, the Company incurred issuance costs of approximately $150. Both the debt discount and issuance costs will be accreted to Notes payable by charges to interest expense over the term of the Term A Loan using the effective interest method.

The Loan Agreement contains customary representations, warranties and covenants and also includes customary events of default. Events of default include, among other things, the Company’s failure to pay amounts due, a breach of certain covenants, a material adverse change event, misrepresentations and judgments. Upon the occurrence of an event of default, a default interest rate of an additional 5.00% per annum may be applied to the outstanding loan balances, and the Lenders may declare all outstanding obligations immediately due and payable. Borrowings under the Loan Agreement are collateralized by substantially all the Company’s assets, other than its intellectual property, which include maintaining certain cash balances in controlled accounts.

Interest expense was ~~$272~~$276 and $821 for the three and nine months ended ~~March 31, 2020.~~September 30, 2020, respectively. Interest expense was $271 for the three and nine months ended September 30, 2019. The effective rate on the Loan Agreement, including the amortization of the debt discount and issuance costs, and accretion of the final payment, was 9.7% at ~~March 31,~~September 30, 2020. The components of the long-term debt balance are as follows:

	March 31, 2020			December 31, 2019			September 30, 2020			December 31, 2019
Notes payable, gross	$	10,000		$	10,000		$	10,000		$	10,000
Less: Unamortized debt discount and issuance costs		(235	)		(254	)		(196	)		(254	)
Accretion of final payment fee		97			64			162			64
Carrying value of notes payable		9,862			9,810			9,966			9,810
Less: Current portion of long-term debt		—			—			(1,089	)		—
Long-term debt, net of issuance costs and discount	$	9,862		$	9,810		$	8,877		$	9,810

As of ~~March 31,~~September 30, 2020, the estimated future principal payments due were as follows:

	As of March 31, 2020		As of September 30, 2020
2020		—	$	-
2021		1,945		1,945
2022		3,333		3,333
2023		3,333		3,333
2024		1,389		1,389
Total principal payments	$	10,000	$	10,000

In December 2014, the Company adopted the LogicBio Therapeutics, Inc. 2014 Equity Incentive Plan, as amended (the “2014 Plan”), for the issuance of stock options and other stock-based awards. In October 2018, the Company’s 2018 Equity Incentive Plan (the “2018 Plan”) became effective and as a result, no further awards will be made under the 2014 Plan. The 2018 Plan was established to provide equity-based ownership opportunities for employees and directors, as well as outside consultants and advisors. Any previously granted awards under the 2014 Plan will remain outstanding in accordance with their respective terms.

Under the 2018 Plan, there is an annual increase on January 1 of each year from 2019 until 2028, by the lesser of (i) 4% of the number of shares of common stock outstanding on December 31 of the prior year and (ii) an amount determined by the Board. On January 1, 2020, the Company increased the number of shares available for future grant under the 2018 Plan by 926,786 shares. At ~~March 31,~~September 30, 2020, there were ~~1,309,885~~1,284,586 shares available for future grant under the 2018 Plan.

The 2018 Plan is administered by the Board. The exercise prices, vesting and other restrictions are determined at the discretion of the Board, except that the exercise price per share of stock options may not be less than 100% of the fair market value of the common stock on the date of grant. Stock options awarded under the 2018 Plan expire 10 years after the grant date, unless the Board sets a shorter term. Vesting periods for awards under the 2018 Plan are determined at the discretion of the Board. Incentive stock options granted to employees and shares of restricted stock granted to employees, officers, members of the Board, advisors, and consultants of the Company typically vest over four years. Non-statutory options, ~~and~~ shares of restricted stock and restricted stock units (“RSU”) granted to employees, officers, members of the Board, advisors, and consultants of the Company typically vest over one to four years.

During the ~~three~~nine months ended ~~March 31,~~September 30, 2020 and 2019, the Company granted options to purchase ~~714,203~~870,203 and ~~79,123~~236,456 shares of common stock, respectively, with a weighted-average grant date fair value per share of ~~$4.74~~$4.80 and ~~$6.03,~~$6.70, respectively. The Company recorded stock-based compensation expense for options granted of ~~$761~~$1,999 and ~~$210~~$1,130 during the ~~three~~nine months ended ~~March 31,~~September 30, 2020 and 2019, respectively. As of ~~March 31,~~September 30, 2020, there were ~~2,930,587~~2,835,149 outstanding options, ~~outstanding and $7,268~~of which 1,412,386 were unvested corresponding to $5,653 of unrecognized stock-based compensation expense related to unvested stock options to be recognized over a weighted-average period of ~~3.1~~2.7 years.

The Company has granted shares of restricted common stock with time-based and performance-based vesting conditions from time to time. ~~During~~The Company did 0t grant any restricted common stock during the ~~three~~nine months ended ~~March 31,~~September 30, 2020 ~~and 2019, the Company did not grant any shares of restricted common stock.~~or 2019. The Company recorded stock-based compensation expense for restricted common stock granted of ~~$44~~$108 and ~~$66~~$199 during the ~~three~~nine months ended ~~March 31,~~September 30, 2020 and 2019, respectively. As of ~~March 31,~~September 30, 2020, there were ~~83,047~~51,300 shares of unvested restricted common stock outstanding and ~~$216~~$152 of unrecognized stock-based compensation expense related to unvested restricted common stock to be recognized over a weighted-average period of ~~1.8~~1.3 years.

The Company has granted RSUs with time-based conditions from time to time. Each RSU represents the right to receive one share of the Company’s common stock upon vesting. The Company has issued RSUs that vest based on the passage of time assuming continued service with the Company. The fair value is calculated based upon the Company’s closing stock price on the date of grant, and the stock-based compensation expense is recognized over the vesting period. During the nine months ended September 30, 2020, the Company granted 125,737 RSUs. There were 0 RSUs granted during the nine months ended September 30, 2019. The Company recorded stock-based compensation for RSUs granted of $321 and $0 during the nine months ended September 30, 2020 and 2019, respectively. As of September 30, 2020, there were 120,437 RSUs outstanding and $373 of unrecognized stock-based compensation expense related to unvested RSUs to be recognized over a weighted-average period of 0.5 years.

Total stock-based compensation expense recorded as research and development and general and administrative expenses, respectively, for employees, directors and non-employees for the ~~three~~nine months ended ~~March 31,~~September 30, 2020 and 2019 is as follows:

	Three Months Ended March 31,				Nine Months Ended September 30,
	2020		2019		2020		2019
Research and development	$	295	$	155	$	776	$	553
General and administrative		510		121		1,652		776
Total stock-based compensation expense	$	805	$	276	$	2,428	$	1,329

On November 15, 2019, the Company entered into an Open Market Sale Agreement (the “Open Market Sale Agreement”) with Jefferies LLC, as agent (“Jefferies”), pursuant to which the Company may issue and sell shares of its common stock having an

aggregate offering price of up to $50,000 (the “Open Market Shares”) from time to time through Jefferies (the “Open Market Offering”).

Under the Open Market Sale Agreement, Jefferies may sell the Open Market Shares by methods deemed to be an “at the market offering” as defined in Rule 415(a)(4) promulgated under the Securities Exchange Act of 1934, as amended. The Company may sell the Open Market Shares in amounts and at times to be determined by the Company from time to time subject to the terms and conditions of the Open Market Sale Agreement, but it has no obligation to sell any of the Open Market Shares in the Open Market Offering.

The Company or Jefferies may suspend or terminate the offering of Open Market Shares upon notice to the other party and subject to other conditions. The Company has agreed to pay Jefferies commissions for its services in acting as agent in the sale of the Open Market Shares in the amount of up to 3.0% of gross proceeds from the sale of the Open Market Shares pursuant to the Open Market Sale Agreement. The Company has also agreed to provide Jefferies with customary indemnification and contribution rights.

~~The Company did not issue any shares under~~During the ~~Open Market Sales Agreement during the quarter~~nine months ended ~~March 31, 2020. From April 1 through May 7,~~September 30, 2020, the Company issued ~~51,889~~436,477 shares of its common stock at ~~an average weighted~~a weighted-average price of ~~$5.76~~$7.56 per share, resulting in ~~gross~~net proceeds to the Company of ~~$299. Costs associated with~~$3,227. At September 30, 2020, the Company had $46,700 in aggregate gross offering amount available under the Open Market Sale Agreement.

On October 5, 2020, the Company completed a follow-on offering under its shelf registration statement on Form S-3 (File No. 333-234735) and a related prospectus supplement pursuant to which the Company issued an aggregate of 8,050,000 shares of the Company’s common stock, which included the full exercise of the underwriters’ option to purchase additional shares, at a public offering price of $6.00 per share. The Company received aggregate net proceeds ~~consist~~ of ~~a 3% cash commission.~~approximately $45,190 from the offering after deducting underwriting discounts and commissions and other estimated offering expenses.

In January 2020, the Company entered into a research agreement with Takeda for the development of product candidate LB-301 to treat ~~Crigler-Najjar Syndrome.~~CN. Under the terms of the Takeda Agreement, Takeda will fund all research and development activities related to the development of LB-301 under a pre-agreed upon research plan (the “Research Plan”). The Takeda Agreement also provides Takeda with an exclusive, non-binding option to enter into a license agreement to the LB-301 program upon the exercise of an option (the “License Option”).

The Company assessed the Takeda Agreement in accordance with ASC 606 and concluded ~~that~~ that it represents a contract with a customer and is within the scope of ASC 606. The promised goods and services represent one combined performance obligation and the entire transaction price will be allocated to that single combined performance obligation. In addition, the Company concluded that the License Option does not provide any discounts or other rights. Terms related to an exclusive license negotiated after the exercise of the License Option will be part of a separate contract and reflect applicable standalone selling prices. As such, the Company concluded the License Option is not considered to be a material right.

Under the Takeda Agreement, Takeda is obligated to reimburse the Company for the costs incurred under the Research Plan. Costs incurred are billed by the Company to Takeda from time to time. The Company elected to recognize revenue under the "right to invoice" practical expedient based on the Company's right to invoice Takeda at an amount that approximates the value to the customer and the performance completed to date. ~~For the quarter ended March 31, 2020, the~~The Company recognized ~~$1,021~~$926 and $2,912 as service revenue under the Takeda ~~Agreement. Further, as~~ ~~of March 31,~~Agreement during the three and nine months ended September 30, 2020, ~~the Company recorded $1,065 as deferred revenue within current liabilities on the Company’s condensed consolidated balance sheets related to the Takeda Agreement.~~respectively.

For the ~~three~~nine months ended ~~March 31,~~September 30, 2020 and the year ended December 31, 2019, the Company maintained a full valuation allowance on federal and state deferred tax assets since management does not forecast the Company to be in a ~~profitable~~taxable position in the near future. The income tax provision within the condensed consolidated statements of operations for the ~~three~~nine months ended ~~March 31,~~September 30, 2019 related to tax expense of the wholly owned foreign subsidiary, LogicBio Therapeutics Research Ltd, which ceased operations in 2018 and was formally dissolved in November 2019.

Basic loss per share is computed by dividing net loss by the weighted-average shares of common stock outstanding, without consideration to common stock equivalents:

	Three Months Ended March 31,						Three Months Ended September 30,						Nine Months Ended September 30,
	2020			2019			2020			2019			2020			2019
Numerator:
Net loss	$	(9,455	)	$	(7,697	)	$	(8,039	)	$	(10,918	)	$	(25,721	)	$	(28,663	)
Denominator:
Weighted-average common stock outstanding		23,175,802			22,313,129			23,599,052			22,677,205			23,367,804			22,491,282
Net loss per share — basic and diluted	$	(0.41	)	$	(0.34	)	$	(0.34	)	$	(0.48	)	$	(1.10	)	$	(1.27	)

The Company’s potentially dilutive shares, which include any outstanding stock options, warrants and unvested restricted stock, are considered to be common stock equivalents and are only included in the calculation of diluted net loss when their effect is dilutive.

The Company excluded the following potential common stock equivalents from the computation of diluted net loss per share attributable to common stockholders because including them would have had an anti-dilutive effect for the three and nine months ended ~~March 31,~~September 30, 2020 and 2019.

	March 31, 2020		March 31, 2019		September 30, 2020		September 30, 2019
Unvested restricted stock		83,047		724,383
Unvested restricted common stock						51,300		403,695
Unvested restricted stock units						120,437		—
Options to purchase common stock		2,930,587		2,429,562		2,835,149		2,332,500
Term A Loan warrants		15,686		—		15,686		15,686

The Company has historically entered into lease arrangements for its facilities and certain equipment. As of ~~March 31,~~September 30, 2020, the Company had ~~one~~2 operating ~~lease~~leases with required future minimum payments. In applying the guidance under ASC Topic 842, Leases (“ASC 842”), the Company determined the classification of ~~this lease~~these leases to be an operating ~~lease~~leases and recorded a right-of-use asset and lease liability as of the ~~effective date.~~commencement date of each lease. The Company’s leases generally do not include termination or purchase options. From time to time, leases may include options to renew the lease after the expiration of the initial lease term. A renewal period is included in the lease term only when it reasonably certain that the Company will exercise such renewal options. As of ~~March 31,~~September 30, 2020, no renewal options existed that the Company felt were reasonably certain of being exercised.

The following table contains a summary of the lease costs recognized under ASC 842 and other information pertaining to the Company’s operating leases for the three months ended March 31, 2020 and 2019:

~~The following table contains a summary of the lease liabilities recognized on the Company’s condensed consolidated balance sheets as of March 31, 2020 and December 31, 2019:~~

The variable lease costs for the three months ended March 31, 2020 include common area maintenance and other operating charges. As the Company’s leases do not provide an implicit rate, the Company utilized its incremental borrowing rate based on what it would normally pay to borrow on a collateralized basis over a similar term for an amount equal to the lease payments at the commencement date in determining the present value of lease payments. As of March 31, 2020, the Company classified its short-term operating lease liabilities within accrued expenses and other current liabilities.

~~Future minimum lease payments under the Company’s operating leases as of March 31, 2020 and December 31, 2019, were as follows:~~

In November 2019, the Company entered into a lease agreement for office, laboratory and vivarium space located at 65 Hayden Avenue Lexington, Massachusetts (“65 Hayden Ave Lease”) to replace the Company’s prior headquarters located at 99 Erie Street Cambridge, Massachusetts. Under the terms of the 65 Hayden Ave Lease, the Company ~~will lease~~leases approximately 23,901 square feet of space and ~~pay~~pays an initial annual base rent of approximately $1,494, which is subject to scheduled annual increases, plus certain operating expenses and taxes. The Company took possession of the space on April 1, 2020 (“Lease Commencement Date”) and the lease will continue through July 1, 2025 (“Lease Termination Date”). The Company has an option to extend the lease for a single additional term of 5 years. Upon execution of the 65 Hayden Ave Lease, the Company executed a $622 cash-collateralized letter of credit. Lease payments are anticipated to begin three months after the Lease Commencement Date and will continue in monthly installments through the Lease Termination Date.

~~The~~At the Lease Commencement Date, the Company ~~will assess~~performed a lease assessment under the ~~lease classification of~~guidance prescribed in ASC 842 and concluded that the 65 Hayden Ave Lease was an operating lease. As such, the Company recorded an operating lease right-of-use asset and ~~commence recognition~~corresponding operating lease liability on the consolidated balance sheets of $6,428 which reflected the ~~associated rent expense as~~net present value of future payments under the lease. The discount rate used to calculate the net present value of future payments was the Company’s incremental borrowing rate at the Lease Commencement ~~Date.~~Date, which was 7.6%.

The following table contains a summary of the lease costs recognized under ASC 842 and other information pertaining to the Company’s operating leases for the three and nine months ended September 30, 2020 and 2019:

The following table contains a summary of the lease liabilities recognized on the Company’s condensed consolidated balance sheets as of September 30, 2020 and December 31, 2019:

The variable lease costs for the three and nine months ended September 30, 2020 and 2019 include common area maintenance and other operating charges. As the Company’s leases do not provide an implicit rate, the Company utilized its incremental borrowing rate based on what it would normally pay to borrow on a collateralized basis over a similar term for an amount equal to the lease payments at the commencement date in determining the present value of lease payments.

Future minimum lease payments under the Company’s operating leases as of September 30, 2020 and December 31, 2019, were as follows:

From time to time, the Company is or has been party to consulting service agreements with each of its ~~three~~3 co-founders. Under the terms of each agreement, the Company pays an annual fee of $68 for research and development consulting services. For the three and nine months ended ~~March 31,~~September 30, 2020, the Company recorded research and development expense of $17 and $51, respectively, related to consulting services received from Mark Kay, who is one of the co-founders and a member of the Board. For the three and nine months ended ~~March 31,~~September 30, 2019, the Company recorded ~~$51~~$34 and $118, respectively, to research and development expenses under consulting service agreements with its three co-founders.

On March 18, 2020, a purported shareholder class action, John R. Afinowicz v. LogicBio Therapeutics, Inc., et al., No. 2:20-cv-03009, was filed in the United States District Court for the District of New Jersey, naming the Company and certain of its officers as defendants. The lawsuit alleges that the Company made material misrepresentations and/or omissions of material fact relating to its Investigational New Drug submission for LB-001 in its public disclosures, in violation of Sections 10(b) and 20(a) of the Securities Exchange Act of 1934, as amended, and Rule 10b-5 promulgated thereunder. The complaint seeks certification of a class of purchasers of the Company’s common stock during the period from December 3, 2018 through February 10, 2020. The plaintiff seeks unspecified monetary damages on behalf of the putative class and an award of costs and expenses, including attorney’s fees. On May 13, 2020, the defendants moved to transfer the action from the District of New Jersey to the District of Massachusetts, and on May 18, 2020, shareholder John R. Afinowicz moved for appointment as lead plaintiff. The Court granted Defendants’ motion to transfer on June 2, 2020, and the case was transferred to the District of Massachusetts (No. 1:20-cv-11158) on June 18, 2020. The motion for appointment as lead plaintiff remains outstanding. The Company believes that this action is without merit and intends to defend it vigorously. At this time, no assessment can be made as to the likely outcome of this lawsuit or whether the outcome will be material to the Company.

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

The following discussion and analysis of our financial condition and results of operations should be read in conjunction with the unaudited condensed consolidated financial statements and the accompanying notes included in this Quarterly Report on Form 10-Q and the audited consolidated financial information and the notes thereto included in our Annual Report on Form 10-K for the year ended December 31, 2019, which was filed with the Securities and Exchange Commission, or SEC, on March 16, 2020.

This discussion contains certain forward-looking statements that involve risks and uncertainties. Forward-looking statements are identified by words such as “believe,” “will,” “may,” “estimate,” “continue,” “anticipate,” “intend,” “should,” “plan,” “expect,” “predict,” “could,” “potentially” or the negative of these terms or similar expressions. You should read these statements carefully because they discuss future expectations, contain projections of future results of operations or financial condition, or state other “forward-looking” information. These statements relate to our future plans, objectives, expectations, intentions and financial performance and the assumptions that underlie these statements. These forward-looking statements are subject to certain risks and uncertainties that could cause actual results to differ materially from those anticipated in the forward-looking statements. Factors that might cause such a difference include, but are not limited to, those discussed in the “Risk Factors” section of our Annual Report on Form 10-K and ~~in this~~our Quarterly Report on Form ~~10-Q.~~10-Q for the quarterly period ended March 31, 2020. Forward-looking statements are based on our management’s beliefs and assumptions and on information currently available to our management. These statements, like all statements in this Quarterly Report on Form 10-Q, speak only as of their date, and except as required by law, we undertake no obligation to update or revise these statements in light of future developments. We caution investors that our business and financial performance are subject to substantial risks and uncertainties.

We are a company dedicated to extending the reach of genetic medicine with pioneering targeted delivery platforms. Our proprietary genome editing ~~company focused on~~technology platform, GeneRide, enables the site-specific integration of a therapeutic transgene without nucleases or exogenous promoters by harnessing the native process of homologous recombination. We are developing ~~medicines to durably treat rare diseases in pediatric patients with significant unmet medical need using~~LB-001, a wholly owned genome editing program leveraging GeneRide our proprietary technology platform. Our GeneRide technology is designed to precisely integrate corrective genes into a patient’s genome to provide a stable therapeutic effect. Because GeneRide is designed to have this durable therapeutic effect, we are initially targeting rare liver disorders in pediatric patients where it is critical to provide treatment early in a patient’s life before irreversible disease pathology can occur. We have demonstrated proof of concept of our therapeutic platform in animal models for a number of diseases and are focusing on development of our lead product candidate, LB-001, for the treatment of ~~Methylmalonic Acidemia,~~methylmalonic acidemia, or ~~MMA,~~MMA. In addition, we have a ~~life-threatening~~research collaboration with Takeda to develop LB-301, an investigational therapy leveraging GeneRide for the treatment of the rare pediatric disease Crigler-Najjar syndrome, or CN.

We are also developing a Next Generation Capsid platform for use in gene editing and gene therapy. At the American Society of Gene & Cell Therapy, or ASGCT, conference in May 2020, data was presented showing that ~~presents at birth.~~the capsids deliver highly efficient functional transduction of human hepatocytes in a humanized mouse model. The data also showed the capsids exhibited improved manufacturability with low levels of pre-existing neutralizing antibodies in human samples. Based on this data, we believe the top-tier capsid candidates from this effort demonstrated the potential to achieve significant improvements over benchmark adeno-associated viruses, or AAVs, that are currently in clinical development. We are developing these highly potent vectors for internal development candidates and potentially for business development collaborations. We plan to announce data generated from translational animal models using these capsids in early 2021.

Based on our GeneRide technology, we are developing our lead product candidate, LB-001, to treat MMA. In ~~January~~August 2020, we announced the ~~submission~~clearance of an investigational new drug application, or IND, to support the initiation of a Phase 1/2 clinical trial in pediatric patients with ~~MMA, which the FDA has placed on clinical hold. Subsequently, we received~~MMA. The SUNRISE trial is a ~~letter from the FDA specifying its questions related to the clinical hold. The clinical hold was~~ ~~based on questions that were clinical and nonclinical in nature, including questions related to the studies conducted for our IND filing,~~ ~~but did not relate~~ to chemistry, manufacturing, and controls. We expect to have interactions with the FDA regarding their questions through mid-2020, after which we plan to provide guidance on the anticipated timing for the initiation of themulti-center, open-label, Phase 1/2 clinical trial designed to assess the safety and tolerability of a single intravenous infusion of LB-001 in pediatric patients with MMA characterized by methylmalonyl-CoA mutase gene (MMUT) mutations. Six leading centers in the United States are expected to participate in the SUNRISE Phase 1/2 trial.

The SUNRISE Phase 1/2 clinical trial is expected to enroll eight pediatric patients with ages ranging from 6 months to 12 years, initially starting with 3 to 12 year-old patients and then adding patients aged 6 months to 2 years. The SUNRISE trial will evaluate two dose cohorts of LB-001 (cohort 1 = 5 x 10¹³ vg/kg and cohort 2 = 1 x 10¹⁴ vg/kg). After initially starting with the lower dose in the 3 to 12 year old patient group (cohort 1, older age group, n=2), age de-escalation (cohort 1, younger age group, n=2) and dose escalation (cohort 2, older age group, n=2) are planned to occur in parallel. The decision to escalate the dose will be determined based solely on safety, whereas the decision to age de-escalate will be based on both safety and the detection of the pharmacodynamic biomarker, albumin-2A. Afterwards, based on a review of safety and/or the detection of albumin-2A, as applicable, from these two patient groups, the trial will progress to dosing additional patients in the younger age group at the higher dose (cohort 2, younger age group, n=2). The SUNRISE trial includes a six-week staggering interval between the dosing of each patient. Patients will participate in a pre-dosing observational period and will be administered a prophylactic steroid regimen. The primary endpoint of the SUNRISE trial is to assess the safety and tolerability of LB-001 at 52 weeks after a single infusion. Additional endpoints include changes in disease-related biomarkers, including serum methylmalonic acid, clinical outcomes such as growth and healthcare utilization, and the pharmacodynamic marker albumin-2A. We expect to enroll the first patient in early 2021 and provide an operational update regarding the dose escalation and age de-escalation in mid-2021. Based on the parallel age de-escalation and dose escalation plan, we expect to announce interim data from both age groups and both dose cohorts in the SUNRISE trial by the end of 2021.

In addition to the Phase 1/2 SUNRISE trial, we are also conducting a retrospective natural history study designed to evaluate disease progression in pediatric patients with MMA. We expect this study will provide us with insights into, among other matters, the course of disease progression, the impact of a liver transplant on the outcomes of MMA patients and potential endpoints such as the relevance of methylmalonic acid levels on clinical outcomes, with the goal of informing our future clinical development in MMA and our discussions with regulatory agencies as we look toward advancing our MMA program. We plan to announce preliminary findings from our retrospective natural history study in mid-2021.

In November 2020, the U.S. Food and Drug Administration, or FDA, granted Fast Track designation for LB-001 for the treatment of MMA. In addition, we have received rare pediatric disease designation and orphan drug designation from the FDA for LB-001.

We expect that the initial product candidates we develop, including LB-001, will address diseases by targeting the liver, including a category of diseases known as inborn errors of metabolism, a group of genetic disorders that disrupt normal metabolic processes. We believe that achieving clinical proof of concept in an inherited liver disease such as MMA will validate our GeneRide platform technology, including its potential application to other ~~organs~~tissues and diseases. ~~In January 2020,~~Our approach to expanding our indication pipeline may also incorporate indications such as propionic acidemia, which like MMA is an organic acidemia, where we ~~announced a~~can leverage the experience we have gained through our research ~~agreement with Takeda Pharmaceutical Company Limited, or Takeda, to further develop LB-301 in Crigler-Najjar syndrome, or CN,~~and the ~~second indication to be pursued using the GeneRide~~modularity of our platform. ~~In addition to MMA and CN,~~Furthermore, we have demonstrated proof of concept of our platform in hemophilia B and alpha-1-antitrypsin deficiency, or A1ATD, animal disease models. We expect to select future product candidates from these and other genetic diseases ~~or others~~ addressed by targeting the liver initially, and later by targeting skeletal muscle and the central nervous system, or ~~CNS,~~CNS. We plan to select at least one new indication from our preclinical portfolio in 2021 and ~~muscle.~~commence IND-enabling studies utilizing our modular approach and leveraging learnings from our lead programs. Depending on data and timelines, we plan to evaluate the integration of our Next Generation Capsids into our future development programs.

Since our inception in 2014, we have devoted the majority of our efforts to business planning, research and development, developing and protecting our intellectual property, raising capital and recruiting management and technical staff. We do not have any products approved for sale and our only revenue has consisted of service revenue related to research cost reimbursement received under the Takeda agreement. ~~As of March 31,~~Through September 30, 2020, we have raised approximately $9.8 million in net proceeds through the loan and security agreement in July 2019, approximately $72.3 million in net proceeds through our initial public offering, or IPO, in October 2018, ~~and~~ approximately $33.1 million in net proceeds from the sale of our convertible preferred stock in 2016 and ~~2017.~~2017 and $3.2 million in net proceeds through at-the-market sales of our common stock. In addition, in October 2020, we raised approximately $45.2 million in net proceeds, after deducting underwriting discounts and commissions and other estimated offering expenses, through a follow-on offering. We have incurred significant operating losses since our inception. Our ability to generate product revenue sufficient to achieve profitability will depend on the successful development and commercialization of our product candidate and any future product candidates. Our net loss was ~~$9.5~~$25.7 million for the ~~three~~nine months ended ~~March 31,~~September 30, 2020 and our accumulated deficit was ~~$76.8~~$93.1 million as of ~~March 31,~~September 30, 2020. We expect to continue to incur significant expenses and operating losses for the foreseeable future in connection with our ongoing activities.

We have been actively monitoring the COVID-19 pandemic and its impact globally. Our objectives have remained the same throughout the pandemic: to support the safety of our team members and their families and to continue our research and development activities to develop genetic medicines that have the potential to durably treat rare diseases in patients with significant unmet medical need.

Since mid-March 2020, our non-laboratory employees have been working remotely in order to comply with social distancing and ~~“stay at home”~~other applicable orders ~~as well as applicable~~and guidelines from ~~the U.S. Centers for Disease Control~~federal, state and ~~Prevention, or CDC. Our~~local government agencies. After being limited to working in shifts on-premises through early July, laboratory employees, whose work must be performed on premises, have ~~been~~returned to normal working ~~in shifts to continue our in-house research and manufacturing activities on a decreased basis.~~schedules on-premises. We have also ceased all business travel for our employees. We plan to maintain these or similar restrictions on our business activities until we believe our employees can fully resume such business activities in accordance with federal, state and local requirements and guidelines.

Our research, development and manufacturing activities are dependent on our ability to continue our work on premises at our laboratory. We also rely on third parties located in countries that are affected by the COVID-19 pandemic, including the United States, for certain research, development and manufacturing activities. Similar to how we have restricted business activities at our premises, many of these third parties have also limited their staff from working on premises as part of their response to COVID-19. While we believe we and our third party vendors, suppliers and collaborators have largely been able to continue or resume essential business activities to a certain degree, we cannot predict the impact of the progression of the COVID-19 pandemic on future results due to a variety of factors, including the health of our and their employees, our ability to maintain operations, the ability of our third party vendors, suppliers and collaborators to continue operations, any further government and/or public actions taken in response to the pandemic and ultimately the length of the pandemic.

In April 2020, as part of our effort to preserve capital, our leadership team volunteered to accept salary cuts ranging from 15% to 20%. which remained in effect until September 30, 2020. We have also adopted certain other cost-cutting measures aimed at enhancing our capital position. During ~~April and through May 7,~~the nine months ended September 30, 2020, we entered into “at-the-market” sales of our common stock resulting in ~~gross~~net proceeds of approximately ~~$0.3~~$3.2 million. In September 2020, we entered into an amendment to the loan and security agreement with Oxford Finance LLC and Horizon Technology Finance Corporation, or the Loan Agreement, to extend the availability of the $10.0 million second loan tranche until the earliest of (i) the date that is thirty (30) days immediately following the date by which certain development milestones and equity financing events shall have occurred, (ii) March 31, 2021 and (iii) the occurrence of an Event of Default (as defined in the Loan Agreement).While we intend to continue to evaluate ways to enhance our liquidity and capital position, our efforts will largely depend on future developments that are highly uncertain and cannot be predicted with confidence at this time.

We plan to continue to closely monitor the COVID-19 pandemic in order to ensure the safety of our personnel and to continue advancing our research and development activities.

To date, ~~the Company’s~~our only revenue has consisted of research cost reimbursements recognized as service revenue, all of which is attributable to the ~~Company’s~~ January 2020 research agreement with Takeda to develop LB-301 in CN. ~~The Company has~~We have not generated any revenue from product sales and ~~does~~do not expect to generate any revenue from product sales for the foreseeable future.

Research and development expenses consist primarily of costs incurred for our research activities, including our discovery efforts and the development of our product candidates, and include:

We expense research and development costs as incurred. Costs for external development activities are recognized based on an evaluation of the progress to completion of specific tasks. Payments for these activities are based on the terms of the individual agreements, which may differ from the pattern of costs incurred, and are reflected in our financial statements as prepaid or accrued research and development expenses.

General and administrative expenses consist primarily of salaries and other related costs, including stock-based compensation, for personnel in our executive, finance, corporate and business development and administrative functions. General and administrative expenses also include professional fees for legal, patent, accounting, auditing, tax and consulting services, travel expenses, and facility-related expenses, which include direct depreciation costs and allocated expenses for rent and maintenance of facilities and other operating costs.

Interest income consists primarily of interest on our cash and cash equivalents and investments. Interest expense consists of interest expense related to the aggregate $10.0 million principal amount of the Term A Loan borrowing under the loan ~~and security~~ agreement in July 2019. A portion of the interest expense on the Term A Loan is non-cash expense relating to the accretion of the debt discount and amortization of issuance costs. InDuring the three and nine months ended ~~March 31,~~September 30, 2020, we recorded $0.3 million and $0.8 million, respectively, in interest expense, of which $0.2 million ~~relates~~and $0.7 million, respectively, related to cash interest paid and the remainder to the accretion of the debt discount and amortization of issuance costs. Other expense, net consists primarily of foreign exchange losses.

The following table summarizes our results of operations for the three months ended ~~March 31,~~September 30, 2020 and 2019:

	Three Months Ended March 31,						Three Months Ended September 30,
	2020			2019			2020			2019
	(in thousands)						(in thousands)
REVENUE
Service revenue	$	1,021		$	—		$	926		$	—
Total revenue		1,021			—			926			—
OPERATING EXPENSES
Research and development		7,173			5,486			5,492			8,858
General and administrative		3,192			2,632			3,200			2,175
Total operating expenses		10,365			8,118			8,692			11,033
Loss from operations		(9,344	)		(8,118	)		(7,766	)		(11,033	)
Other income (expense):
Other (expense) income:
Other (expense) income, net		(111	)		443			(273	)		115
Loss before income taxes		(9,455	)		(7,675	)		(8,039	)		(10,918	)
Income tax provision		—			(22	)		—			—
Net loss	$	(9,455	)	$	(7,697	)	$	(8,039	)	$	(10,918	)

~~The Company’s~~Our revenue for the three months ended ~~March 31,~~September 30, 2020 consisted solely of the ~~$1.0~~$0.9 million in research cost reimbursements recognized as service revenue under the January 2020 research agreement with Takeda.

The following table summarizes our research and development expenses for the three months ended ~~March 31,~~September 30, 2020 and 2019:

	Three Months Ended March 31,						Three Months Ended September 30,
	2020		2019		Increase		2020		2019		(Decrease) / Increase
	(in thousands)						(in thousands)
LB-001 external development and manufacturing costs	$	3,494	$	2,754	$	740	$	1,714	$	5,546	$	(3,832	)
Personnel-related costs		1,766		1,197		569	$	1,536		1,534		2
Other research and development costs		1,913		1,535		378	$	2,242		1,778		464
Total research and development expenses	$	7,173	$	5,486	$	1,687	$	5,492	$	8,858	$	(3,366	)

Research and development expenses for the three months ended ~~March 31,~~September 30, 2020 were ~~$7.2~~$5.5 million, compared to ~~$5.5~~$8.9 million for the three months ended ~~March 31,~~September 30, 2019. The ~~increase~~decrease of approximately ~~$1.7~~$3.4 million was primarily due to ~~increases~~decreases of approximately ~~$0.7~~$3.8 million ~~related to~~in external development and manufacturing expenses for our lead product candidate, ~~LB-001, $0.4~~LB-001. This decrease was partially offset by an increase of $0.5 million in other research and development expenses as we increased our overall research and development activities related ~~to general platform development~~GeneRide and $0.6 million in personnel-related costs due to an increase in headcount. Personnel-related costs for the three months ended March 31, 2020 included stock-based compensation expense of $0.3 million, compared to $0.2 million for the three months ended March 31, 2019.our Next Generation Capsids. While there may be fluctuations on a quarterly basis, we expect that our research and development costs will decrease ~~over the next twelve months~~during 2020, as ~~we believe that~~compared to 2019, as we have already incurred a significant proportion of the LB-001 external development and manufacturing costs needed to bring LB-001 into clinical development.

General and administrative expenses were $3.2 million for the three months ended ~~March 31,~~September 30, 2020, compared to ~~$2.6~~$2.2 million for the three months ended ~~March 31,~~September 30, 2019. The increase of approximately ~~$0.6~~$1.0 million was primarily ~~due to~~driven by an increase ~~in personnel-related costs which include salaries, stock-based compensation and bonus. This increase was due to an increase in headcount, including at the executive level, as well as an increase~~of $0.4 in stock-based compensation ~~expense. Stock-based compensation~~ expense ~~included~~and a $0.4 million increase in ~~general~~legal fees and ~~administrative expenses was $0.5 million and $0.1 million for the three months ended March 31, 2020 and 2019, respectively.~~professional services. We expect that our general and administrative expenses will remain relatively consistent ~~over the next twelve months,~~for 2020, as compared to 2019, although there may be fluctuations on a quarterly basis.

Other expense, net was $0.3 million for the three months ended September 30, 2020, compared to other income, net of $0.1 million for the three months ended ~~March 31, 2020, compared to other income, net of $0.4 million for the three months ended March 31,~~September 30, 2019. The net decrease was primarily related to a decrease in interest income due to lower interest rates and lower capital resource balances as well as interest expense related to the loan agreement.

The following table summarizes our results of operations for the nine months ended September 30, 2020 and 2019:

Our revenue for the nine months ended September 30, 2020 consisted solely of the $2.9 million in research cost reimbursements recognized as service revenue under the January 2020 research agreement with Takeda.

The following table summarizes our research and development expenses for the nine months ended September 30, 2020 and 2019:

Research and development expenses for the nine months ended September 30, 2020 were $18.6 million, compared to $22.3 million for the nine months ended September 30, 2019. The decrease of approximately $3.7 million was primarily due to a decrease of approximately $5.4 million related to external development and manufacturing expenses for our lead product candidate, LB-001. This decrease was partially offset by an increase of $1.2 million in other research and development expenses as we increased our overall research and development activities related to GeneRide and our Next Generation Capsids and a $0.5 million increase in personnel-related costs. Personnel-related costs for the nine months ended September 30, 2020 included stock-based compensation expense of $0.8 million, compared to $0.6 million for the nine months ended September 30, 2019.

General and administrative expenses for the nine months ended September 30, 2020 were $9.4 million, compared to $7.3 million for the nine months ended September 30, 2019. The increase of approximately $2.1 million reflects a $1.0 million increase in personnel-related costs primarily driven by an increase in stock-based compensation expense, a $0.4 million increase in corporate and IP legal expenses and an increase of $0.3 million related to D&O insurance premiums.

Other expense, net was $0.7 million for the nine months ended September 30, 2020, compared to other income, net of $1.0 million for the nine months ended September 30, 2019. The net decrease was primarily related to a decrease in interest income due to lower interest rates and lower capital resource balances as well as interest expense related to the loan agreement.

Since our inception and through ~~March 31,~~September 30, 2020, we have not generated any sales revenue and have incurred significant losses and negative cash flows from our operations.

As a result of the uncertainties for our business caused by the COVID-19 pandemic, we have implemented certain measures as part of our effort to preserve capital as described further under the heading “Impact of COVID-19.” As of ~~March 31,~~September 30, 2020, we had cash and cash equivalents of ~~$43.2~~$32.3 million, which combined with the estimated net proceeds of approximately $45.2 million under our October follow-on offering, we believe will be ~~able~~sufficient to fund our operating expenses and capital ~~expenditure requirements through~~expenditures for at least the ~~second quarter~~next twelve months from the date of ~~2021.~~issuance of the financial statements included in this Quarterly Report on Form 10-Q. While we intend to continue to evaluate ways to enhance our liquidity and capital position, our efforts will largely depend on future developments that are highly uncertain and cannot be predicted with confidence at this time. ~~As such, there is substantial doubt about the Company’s ability to continue as a going concern within one year of the date these financial statements are filed.~~

The following table summarizes our cash flows for the ~~three~~nine months ended ~~March 31,~~September 30, 2020 and 2019:

	Three Months Ended March 31,						Nine Months Ended September 30,
	2020			2019			2020			2019
	(in thousands)						(in thousands)
Net cash used in operating activities	$	(7,538	)	$	(8,232	)	$	(21,436	)	$	(27,048	)
Net cash provided by (used in) investing activities		17,500			(44,809	)		17,157			(25,174	)
Net cash provided by financing activities		84			—			3,311			9,988
Effect of foreign exchange rates on cash and cash equivalents		—			5			—			8
Net increase (decrease) in cash, cash equivalents and restricted cash	$	10,046		$	(53,036	)
Net decrease in cash, cash equivalents and restricted cash							$	(968	)	$	(42,226	)

During the ~~three~~nine months ended ~~March 31,~~September 30, 2020, net cash used in operating activities was approximately ~~$7.5~~$21.4 million, primarily related to our net loss adjusted for non-cash charges and changes in the components of working capital. The ~~$0.7~~$5.6 million decrease in net cash used in operating activities during the ~~three~~nine months ended ~~March 31,~~September 30, 2020 as compared to the ~~three~~nine months ended ~~March 31,~~September 30, 2019, was primarily driven by ~~an increase~~the decrease in ~~our deferred revenue related to the January 2020 research agreement with Takeda.~~net loss as well as larger non-cash stock-based compensation expense.

During the ~~three~~nine months ended ~~March 31,~~September 30, 2020, net cash provided by investing activities was ~~$17.5~~$17.2 million as the proceeds from our short-term investments that matured during the period were not reinvested and were instead held as cash and cash equivalents. During the ~~three~~nine months ended ~~March 31,~~September 30, 2019, net cash used in investing activities was ~~$44.8~~$25.2 million, ~~which~~ primarily related to ~~outflows~~net short-term investments activity of ~~our cash~~$24.1 million and ~~cash equivalents into short-term investments.~~the purchase of property and equipment of $1.1 million.

During the ~~three~~nine months ended ~~March 31,~~September 30, 2020, net cash provided by financing activities was $3.3 million primarily driven by approximately $3.2 million in net proceeds from sales of our common stock under the open market sales agreement with Jefferies LLC and $0.1 million in proceeds related to the exercise of stock options. During the ~~three~~nine months ended ~~March 31,~~September 30, 2019, ~~there were no~~ net cash ~~inflows or outflows~~provided by financing activities was approximately $10.0 million, primarily related to ~~financing activities.~~net proceeds of $9.8 million under the July 2019 loan and security agreement as well as $0.1 million related to the exercise of stock options.

We expect to continue to incur a significant amount of expenses in connection with our ongoing activities for the foreseeable future. In particular, we will incur significant expenses related to the preclinical activities and clinical trials of our product candidates and any future product candidates.

We are unable to estimate the timing and amounts of increased capital outlays and operating expenses associated with completing the research and development of our product candidates because of the numerous risks and uncertainties associated with the development of LB-001 and any other product candidates and programs we may develop and because the extent to which we may enter into collaborations with third parties for development of LB-001 and any other product candidates we may develop is unknown. For example, in January 2020, we announced the submission of an IND to support the initiation of a Phase 1/2 clinical trial in pediatric patients with MMA, which the FDA has placed on clinical hold pending the resolution of certain clinical and nonclinical questions. Our future funding requirements, both near and long-term, will depend on many factors, including:

A change in the outcome of any of these variables with respect to the development of a product candidate could mean a significant change in the costs and timing associated with the research and development of that product candidate. For example, if ~~the clinical hold on the IND for LB-001 causes significant delays in the progress of our MMA program,~~ the FDA or another regulatory authority were to require us to conduct ~~preclinical studies or~~ clinical trials beyond those that we anticipate will be required for the completion of clinical development of a product candidate, or if we experience significant trial delays due to patient enrollment or other reasons, we would be required to expend significant additional financial resources and time on ~~preclinical and~~the completion of clinical ~~research and development activities.~~ development. Any significant delays in our programs may also require us to reevaluate our corporate strategy, resulting in the expenditure of significant resources and time. We may never succeed in obtaining regulatory approval for our product candidates or any future product candidates.

Until such time, if ever, that we can generate product revenue sufficient to achieve profitability, we expect to finance our cash needs through offerings of securities, private equity financing, debt financings, collaborations, government contracts or other strategic transactions. The terms of financing may adversely affect the holdings or the rights of our stockholders. If we are unable to obtain funding, we may be required to delay, limit, reduce or terminate some or all of our research and product development, product portfolio expansion or future commercialization efforts.

In November 2019, we entered into an open market sale agreement with Jefferies LLC as the sales agent. Under the terms of this sale agreement, we may sell shares of our common stock, from time to time, having an aggregate value of up to $50 million through Jefferies LLC. We ~~did not issue any shares~~pay a 3% cash commission to Jefferies LLC on the proceeds from sales under the ~~sales agreement during~~program. During the ~~quarter~~nine months ended ~~March 31, 2020. From April 1 through May 7,~~September 30, 2020, we issued ~~51,889~~436,477 shares of our common stock at ~~an average weighted~~a weighted-average price of ~~$5.76~~$7.56 per share, resulting in ~~gross~~net proceeds to us of ~~$0.3~~$3.2 million. ~~Costs associated~~At September 30, 2020, we had $46.7 million in aggregate gross offering amount available under this sales agreement.

In September 2020, we entered into an amendment to the Loan Agreement to extend the availability of the $10.0 million second loan tranche until the earliest of (i) the date that is thirty (30) days immediately following the date by which certain development milestones and equity financing events shall have occurred, (ii) March 31, 2021 and (iii) the occurrence of an Event of Default (as defined in the Loan Agreement). While we intend to continue to evaluate ways to enhance our liquidity and capital position, our efforts will largely depend on future developments that are highly uncertain and cannot be predicted with confidence at this time.

In October 2020, we completed a follow-on offering under our shelf registration statement on Form S-3 (File No. 333-234735) and a related prospectus supplement pursuant to which we issued an aggregate of 8,050,000 shares of common stock, which included the full exercise of the underwriters’ option to purchase additional shares, at a public offering price of $6.00 per share. We received aggregate net proceeds ~~consist~~ of ~~a 3% cash commission.~~approximately $45.2 million from the offering after deducting underwriting discounts and commissions and other estimated offering expenses.

We are a smaller reporting company, as defined in Rule 12b-2 under the Securities Exchange Act of 1934, as amended, for this reporting period and are not required to provide additional information on our contractual obligations and commitments pursuant to Item 303 of Regulation S-K.

Our condensed consolidated financial statements are prepared in accordance with generally accepted accounting principles in the United States. The preparation of our condensed consolidated financial statements and related disclosures requires us to make estimates and judgments that affect the reported amounts of assets, liabilities, costs and expenses, and the disclosure of contingent assets and liabilities in our condensed consolidated financial statements. We base our estimates on historical experience, known trends and events and various other factors that we believe are reasonable under the circumstances, the results of which form the basis for making judgments about the carrying values of assets and liabilities that are not readily apparent from other sources. We evaluate our estimates and assumptions on an ongoing basis. Our actual results may differ from these estimates under different assumptions or conditions.

There have been no significant changes to our critical accounting policies from those described in “Management’s Discussion and Analysis of Financial Condition and Results of Operations,” included in our Annual Report on Form 10-K for the year ended December 31, 2019, filed with the SEC on March 16, 2020, other than the significant accounting policy over revenue recognition under ASC 606, which is described further in Note 2 to the financial statements included in this Quarterly Report on Form 10-Q.

The Jumpstart Our Business Startups Act of 2012 permits an “emerging growth company” such as us to take advantage of an extended transition period to comply with new or revised accounting standards applicable to public companies until those standards would otherwise apply to private companies. We have irrevocably elected to “opt out” of this provision and, as a result, we will comply with new or revised accounting standards when they are required to be adopted by public companies that are not emerging growth companies.

We have not entered into any off-balance sheet arrangements and do not have any holdings in variable interest entities.

Refer to Note 2 in the accompanying notes to our unaudited condensed consolidated financial statements appearing elsewhere in this Quarterly Report on Form 10-Q for a discussion of recent accounting pronouncements.

We are a smaller reporting company, as defined in Rule 12b-2 under the Securities Exchange Act of 1934, as amended, for this reporting period and are not required to provide the information required under this item.

Our management, with the participation of our Chief Executive Officer (principal executive officer) and Chief Financial Officer (principal financial officer), evaluated the effectiveness of our disclosure controls and procedures as of ~~March 31,~~September 30, 2020. The term “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”), means controls and other procedures of a company that are designed to ensure that information required to be disclosed by a company in the reports that it files or submits under the Exchange Act is recorded, processed, summarized and reported, within the time periods specified in the SEC’s rules and forms. Disclosure controls and procedures include, without limitation, controls and procedures designed to ensure that information required to be disclosed by a company in the reports that it files or submits under the Exchange Act is accumulated and communicated to the Company’s management, including its principal executive and principal financial officers, as appropriate to allow timely decisions regarding required disclosure. Management recognizes that any controls and procedures, no matter how well designed and operated, can provide only reasonable assurance of achieving their objectives and management necessarily applies its judgment in evaluating the cost-benefit relationship of possible controls and procedures. Based on the evaluation of our disclosure controls and procedures as of ~~March 31,~~September 30, 2020, our Chief Executive Officer and our Chief Financial Officer concluded that, as of such date, our disclosure controls and procedures were effective at the reasonable assurance level.

There were no changes in our internal control over financial reporting during the quarter ended ~~March 31,~~September 30, 2020 that have materially affected, or are reasonably likely to materially affect, our internal control over financial reporting. As a result of the COVID-19 pandemic, certain employees began working remotely in March. Notwithstanding these changes to the working environment, we have not identified any material changes in our internal control over financial reporting. We are continually monitoring and assessing the COVID-19 situation to determine any potential impact on the design and operating effectiveness of our internal controls over financial reporting.

On March 18, 2020, a purported shareholder class action, John R. Afinowicz v. LogicBio Therapeutics, Inc., et al.,No. 2:20-cv-03009, was filed in the United States District Court for the District of New Jersey, naming us and certain of our officers as defendants. The lawsuit alleges that we made material misrepresentations and/or omissions of material fact relating to our Investigational New Drug submission for LB-001 in our public disclosures, in violation of Sections 10(b) and 20(a) of the Securities Exchange Act of 1934, as amended, and Rule 10b-5 promulgated thereunder. The complaint seeks certification of a class of purchasers of our common stock during the period from December 3, 2018 through February 10, 2020. The plaintiff seeks unspecified monetary damages on behalf of the putative class and an award of costs and expenses, including attorney’s fees. On May 13, 2020, the defendants moved to transfer the action from the District of New Jersey to the District of Massachusetts, and on May 18, 2020, shareholder John R. Afinowicz moved for appointment as lead plaintiff. The Court granted Defendants’ motion to transfer on June 2, 2020, and the case was transferred to the District of Massachusetts (No. 1:20-cv-11158) on June 18, 2020. The motion for appointment as lead plaintiff remains outstanding.We believe that this action is without merit and intend to defend it vigorously. At this time, no assessment can be made as to the likely outcome of this lawsuit or whether the outcome will be material to us.

In addition to the other information set forth in this report, you should carefully consider the factors discussed in Part I, “Item 1A. Risk Factors” in our Annual Report on Form 10-K for the year ended December 31, 2019 and in Part II, “Item 1A. Risk Factors” in our Quarterly Report on Form 10-Q for the quarterly period ended March 31, 2020, which could materially affect our business, financial condition or future results. The risks described in our Annual Report on Form 10-K and our Quarterly Report on Form 10-Q for the quarterly period ended March 31, 2020 may not be the only risks facing the Company. For example, in February 2020 we announced that our investigational new drug application, or IND, for LB-001 was placed on clinical hold by the FDA in order to evaluate certain clinical and preclinical aspects of our submission. While our IND clinical hold for LB-001 was lifted in August 2020, there can be no assurance that the FDA will not place this IND, or any IND relating to any other of our product candidates that we may file in the future, on clinical hold, requiring us to address any issues raised by the FDA in order to continue the applicable clinical trial. Additional risks and uncertainties not currently known to ~~the Company~~us or that ~~the Company~~we currently ~~deems~~deem to be immaterial also may materially adversely affect ~~the Company’s~~our business, financial condition and/or operating results.

There have been no material changes from the risk factors previously disclosed in ~~the Company’s~~our Annual Report on Form 10-K for the fiscal year ended December 31, 2019, filed with the SEC on March 16, 2020, ~~except as noted below.~~

~~Our business has been adversely affected by the ongoing coronavirus pandemic and we expect it to continue to have a negative impact on our business.~~

In December 2019, a novel strain of coronavirus, referred to as 2019-ncov, COVID-19 coronavirus epidemic, or COVID-19, was reported to have surfaced in Wuhan, China. COVID-19 has since become a global pandemic and has had a significant negative effect on business activities across the world.

Since mid-March 2020, our non-laboratory employees have been working remotely in order to comply with social distancing and “stay at home” orders as well as applicable guidelines from the U.S. Centers for Disease Control and Prevention, or CDC. Our laboratory employees, whose work must be performed on premises, have been working in shifts to continue our in-house research and manufacturing activities on a decreased basis. We have also ceased all business travel for our employees. We plan to maintain these or similar restrictions on our business activities until we believe our employees can fully resume such business activities in accordance with federal, state and local requirements and guidelines. Our productivity and our ~~ability to meet our timelines and goals may be negatively affected if our business activities continue to be subjected to these restrictions.~~

~~Our research, development and manufacturing activities are dependent~~Quarterly Report on ~~our ability to continue our work~~Form 10-Q for the quarterly period ended March 31, 2020, filed with the SEC on premises at our laboratory. We also rely on third parties, such as CROs and CMOs, located in areas that are affected by the COVID-19 pandemic for certain research, development and manufacturing activities. Similar to how we have restricted business activities at our premises, many of these third parties have also limited their staff from working on premises as part of their response to the COVID-19 pandemic. The COVID-19 pandemic may have a significant negative effect on our business and future results due to a variety of factors, including the health of our employees, our ability to maintain operations, the ability of our third party vendors, suppliers and collaborators to continue operations, any further government and/or public actions taken in response to the pandemic and ultimately the length of the pandemic. This could lead to supply and other business interruptions with our third-party vendors, suppliers and collaborators, resulting in business/operational disruption which could have a material effect on our business.May 11, 2020.

Infections and deaths related to COVID-19 have significantly disrupted the United States’ healthcare and healthcare regulatory systems. Such disruptions have diverted healthcare resources away from regular activities at a number of institutions where clinical trials are normally conducted. Depending on the duration and severity of the pandemic, our efforts to engage with potential trial sites in start-up and other activities for our planned clinical trials or other studies may be adversely affected. In addition, other known and unknown factors caused by COVID-19 could materially delay other aspects of our clinical trials, including our ability to recruit and retain patients and principal investigators and site staff. Regulatory agencies such as the FDA, which must lift our clinical hold on the IND for LB-001 in MMA prior to the initiation of our interventional clinical trials, may also be disrupted by the pandemic, causing a delay in our plans. Any elongation or de-prioritization of our clinical trials or delay in regulatory review resulting from such disruptions could materially affect the development and study of our product candidates.

Our activities will continue to require a significant expenditure of capital resources. While the full extent of the economic impact brought by and the duration of the COVID-19 pandemic may be difficult to assess or predict, it has resulted in significant disruptions of global financial markets, reducing our ability to access capital. An extended period of disruption in the economy and capital markets could significantly affect our ability to raise additional capital on a timely basis, which would significantly disrupt our programs and also require us to reevaluate our corporate strategy.

On October 23, 2018, we closed our IPO, in which we issued and sold 8,050,000 shares of our common stock, including 1,050,000 shares sold pursuant to the full exercise of the underwriters’ option to purchase additional shares, at a public offering price of $10.00 per share for gross proceeds of $80.5 million, before deducting underwriting discounts and commissions and offering expenses payable by us. All of the shares issued and sold in the IPO were registered under the Securities Act pursuant to a Registration Statement on Form S-1 (File No. 333-227523), which was declared effective by the SEC on October 18, 2018. Jefferies LLC, Barclays Capital Inc. and William Blair & Company, L.L.C. acted as joint book-running managers of the offering and as representatives of the underwriters. Chardan Capital Markets, LLC acted as the lead manager for the offering. The offering commenced on October 18, 2018 and did not terminate until the sale of all of the shares offered.

The net offering proceeds to us, after deducting underwriting discounts and offering costs payable by us of an aggregate of approximately $8.2 million, were approximately $72.3 million. No material offering expenses were paid directly or indirectly to any of our directors or officers (or their associates) or persons owning 10.0% or more of any class of our equity securities or to any other affiliates.

There has been no material change in our planned use of the net offering proceeds from our IPO as described in our final prospectus filed with the SEC pursuant to Rule 424(b)(4) on October 22, 2018. We have been using and plan to continue to use the net proceeds from the IPO primarily to fund the development of LB-001 in MMA and for discovery and preclinical development of additional product candidates, and for working capital and general corporate purposes.

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.

Title of each class		Trading Symbol(s)		Name of each exchange on which registered
Common Stock, par value $0.0001 per share		LOGC		Nasdaq Global Market


		Page
PART I.	FINANCIAL INFORMATION	4
Item 1.	Financial Statements (Unaudited)	4
	Condensed Consolidated Balance Sheets as of ~~March 31,~~September 30, 2020 and December 31, 2019	4
	Condensed Consolidated Statements of Operations for the Three and Nine Months Ended ~~March 31,~~September 30, 2020 and 2019	5
	Condensed Consolidated Statements of Comprehensive Loss for the Three and Nine Months Ended ~~March 31,~~September 30, 2020 and 2019	6
	Condensed Consolidated Statements of Stockholders’ Equity for the Three and Nine Months Ended ~~March 31,~~September 30, 2020 and 2019	7
	Condensed Consolidated Statements of Cash Flows for the ~~Three~~Nine Months Ended ~~March 31,~~September 30, 2020 and 2019	8
	Notes to Unaudited Condensed Consolidated Financial Statements	9
Item 2.	Management’s Discussion and Analysis of Financial Condition and Results of Operations	1920
Item 3.	Quantitative and Qualitative Disclosures About Market Risk	2629
Item 4.	Controls and Procedures	2629

PART II.	OTHER INFORMATION	2730
Item 1.	Legal Proceedings	2730
Item 1A.	Risk Factors	2730
Item 2.	Unregistered Sales of Equity Securities and Use of Proceeds	2830
Item 6.	Exhibits	2931
Signatures		3032

	Three Months Ended March 31, 2020		Three Months Ended March 31, 2019
Operating leases
Lease cost
Operating lease cost	$	325	$	274
Variable lease cost		98		42
Total lease cost	$	423	$	316
Other year-to-date lease information
Operating cash flows used for operating leases	$	321	$	199
Operating lease liabilities arising from obtaining right-of-use assets	$	—	$	1,323

	As of March 31, 2020			As of December 31, 2019
Other operating lease information
Operating lease liabilities — short term	$	199		$	504
Operating lease liabilities — long term	$	—		$	—
Weighted average remaining lease term	0.6 years			0.7 years
Weighted average discount rate		7.04	%		7.04	%

	Three Months Ended September 30,				Nine Months Ended September 30,
	2020		2019		2020		2019
Operating leases
Lease cost
Operating lease cost	$	465	$	312	$	1,254	$	901
Variable lease cost	$	190		100		474		234
Total lease cost	$	655	$	412	$	1,728	$	1,135
Other year-to-date lease information
Operating cash flows used for operating leases					$	929	$	836
Operating lease liabilities arising from obtaining right-of-use assets					$	6,428	$	1,323

	December 31, 2019
	Cost Basis		Gross Unrealized Gains		Gross Unrealized Losses		Fair Value
U.S. Treasury securities	$	17,526	$	14	$	—	$	17,540
Total	$	17,526	$	14	$	—	$	17,540

	As of March 31, 2020			As of December 31, 2019
Maturity of lease liabilities
2020	$	204		$	523
Thereafter		—			—
Total lease payments	$	204		$	523
Less: imputed interest		(5	)		(19	)
Total operating lease liabilities	$	199		$	504

	As of September 30, 2020			As of December 31, 2019
Maturity of lease liabilities
2020	$	403		$	523
2021		1,516			—
2022		1,562			—
2023		1,609			—
2024		1,657			—
Thereafter		841			0
Total lease payments		7,588			523
Less: imputed interest		(1,258	)		(19	)
Total operating lease liabilities	$	6,330		$	504

EXHIBIT 3.1	—	Fourth Amended and Restated Certificate of Incorporation (incorporated by reference to Exhibit 3.1 to the Company’s Current Report on Form 8-K, File No. 001-38707, filed on October 29, 2018).

EXHIBIT 3.2	—	Amended and Restated Bylaws (incorporated by reference to Exhibit 3.2 to the Company’s Current Report on Form 8-K, File No. 001-38707, filed on October 29, 2018).

EXHIBIT ~~10.1~~10.1*	—	~~Amended~~First Amendment to Loan and ~~Restated Executive Employment~~Security Agreement, dated April 23, 2020, by and between the Company, LogicBio ~~Therapeutics, Inc.~~Australia Pty Limited, Oxford Finance LLC and ~~Kenneth Huttner.~~Horizon Credit II LLC.

EXHIBIT 10.2*+	—	Second Amendment to Loan and Security Agreement, dated September 28, 2020, by and between the Company, LogicBio Australia Pty Limited, Oxford Finance LLC and Horizon Credit II LLC.

EXHIBIT ~~31.1~~10.3*+	—	~~Rule 13a—14(a) / 15d—14(a) Certifications — Chief Executive Officer.~~Amendment No.2 to Patent & Technology License Agreement, dated September 29, 2020, by and between LogicBio Therapeutics, Inc. and The Board of Regents of The University of Texas System.

EXHIBIT ~~31.2~~31.1*	—	Rule 13a—14(a) / 15d—14(a) Certifications — Chief ~~Financial~~Executive Officer.

EXHIBIT ~~32.1~~31.2*	—	Rule 13a—14(a) / 15d—14(a) Certifications — Chief Financial Officer.

EXHIBIT 32.1*	—	Section 1350 Certifications.

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	LogicBio Therapeutics, Inc.

Dated: ~~May 11,~~November 9, 2020	By:	/s/ Frederic Chereau
		Frederic Chereau
		President and Chief Executive Officer

Dated: ~~May 11,~~November 9, 2020	By:	/s/ Matthias Jaffé
		Matthias Jaffé
		Chief Financial Officer