You should read the following discussion and analysis of our financial condition
and results of operations together with our condensed consolidated financial
statements and the related notes appearing elsewhere in this Quarterly Report on
Form 10-Q. This discussion and analysis contains forward-looking statements that
involve significant risks and uncertainties. You should read the "Risk Factors"
section in Part II, Item 1A. of this Quarterly Report on Form 10-Q for a
discussion of important factors that could cause our actual results to differ
materially from the results described in or implied by the forward-looking
statements contained in the following discussion and analysis.

OVERVIEW


We are a clinical stage biopharmaceutical company that is developing small
molecule drugs that we discovered through the application of our DCE Platform.
Selective incorporation of deuterium into known molecules has the potential, on
a case-by-case basis, to provide better pharmacokinetic or metabolic properties,
thereby enhancing their clinical safety, tolerability or efficacy. Our pipeline
consists of clinical stage candidates targeting autoimmune and CNS disorders,
and a number of preclinical compounds that we are currently assessing.

[[Image Removed: cnce-20200630_g1.jpg]]

CTP-543


CTP-543 Opportunity
CTP-543 is an oral JAK1 and JAK2 inhibitor that we are developing for the
treatment of moderate-to-severe alopecia areata, a disease that currently has no
approved treatments. Alopecia areata is a serious, chronic autoimmune disease
affecting approximately 700,000 Americans at any given time that results in
partial or complete loss of hair on the scalp and/or body. CTP-543 was
discovered by applying our deuterium chemistry technology to modify ruxolitinib,
a JAK inhibitor, which is commercially available under the name Jakafi® in the
United States for the treatment of certain blood disorders and for graft versus
host disease. The FDA has granted CTP-543 Breakthrough Therapy designation for
the treatment of adult patients with moderate-to-severe alopecia areata and Fast
Track designation for the treatment of alopecia areata.
Clinical Development of CTP-543
We have completed three Phase 2 trials of CTP-543 for the treatment of
moderate-to-severe alopecia areata to support the advancement of the program
into Phase 3 development. In September 2019, we announced topline results from a
Phase 2 double-blind, randomized, dose-ranging trial to evaluate three
sequential doses of CTP-543 (4, 8 and 12 mg twice-daily) and a placebo control
in 149 patients with moderate-to-severe alopecia areata. Patients treated with
either 8 mg twice-daily or 12 mg twice-daily of CTP-543 met the primary efficacy
endpoint with statistically significant differences (p <0.001) relative to
                                       22
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placebo in the percentage of patients achieving a ? 50% relative change from
baseline at 24 weeks. The 8 mg twice-daily and 12 mg twice-daily groups were
also significantly different from placebo in the number of patients achieving ?
75% and ? 90% relative change in Severity of Alopecia Tool, or SALT, score
between baseline at 24 weeks. A numerically but not statistically greater
percentage of patients treated with the 4 mg twice-daily dose of CTP-543 met the
primary efficacy endpoint. At 24 weeks, patients treated with 8 mg twice-daily
and 12 mg twice-daily compared to placebo also rated significantly greater
improvement in their alopecia areata on the Patient Global Impression of
Improvement Scale. Treatment with CTP-543 was generally well tolerated. The most
common side effects in the 8 mg or 12 mg twice-daily groups were headache,
nasopharyngitis, upper respiratory tract infection, acne, nausea and low-density
lipoprotein increase. One serious adverse event of facial cellulitis was
reported in the 12 mg twice-daily group as possibly related to treatment;
however, after a brief interruption, treatment continued and this patient
completed the trial. No thromboembolic events were reported during the trial.

In June 2020, we released new data analyses from our Phase 2 dose-ranging trial
of CTP-543. The new data analyses revealed that statistically significant
results were reported for the 8 mg twice-daily and 12 mg twice-daily doses of
CTP-543 at more stringent response thresholds, which may be more clinically
meaningful to patients, and positive findings were reported for clinician and
patient reported outcome measures of scalp hair loss. At 24 weeks, 26% and 42%
of patients who received CTP-543 in the 8 mg twice-daily and 12 mg twice-daily
cohorts, respectively, achieved an absolute SALT score ? 20 (p <0.05 vs.
placebo), indicating a clinically-meaningful 80 percent or greater scalp hair
present. Data from the Clinician Global Impression of Improvement scale showed
75% of clinicians rated the response in the 12 mg twice-daily cohort and 61% of
clinicians rated the response in the 8 mg twice-daily cohort as "much improved"
or "very much improved" at 24 weeks. For both doses, there was a statistically
significant difference from placebo (p <0.001).

In December 2019, we announced that we completed an open label Phase 2 trial
evaluating 8 mg twice-daily compared to 16 mg once-daily dosing of CTP-543 in 57
patients with moderate-to-severe alopecia areata. Results in the 8 mg
twice-daily arm were consistent with the previously-reported 8 mg twice-daily
results from our Phase 2 dose-ranging trial of CTP-543. The trial measured the
relative change in SALT score between baseline and 24 weeks. Treatment was
generally well tolerated in both arms of the study. All but one of the patients
who completed this trial elected to continue in an ongoing open label long-term
extension study. A second open label Phase 2 trial evaluating 12 mg twice-daily
compared to 24 mg once-daily dosing of CTP-543 in patients with
moderate-to-severe alopecia areata was completed in 2020. We intend to utilize
the 8 mg twice-daily and 12 mg twice-daily doses in our clinical development
program for CTP-543 going forward.

As of April 2019, all patients who complete efficacy and safety studies with CTP-543 are eligible to enroll into an open label long-term extension study.



We conducted an end of Phase 2 meeting with the FDA in March 2020 and announced
our plans to advance CTP-543 into Phase 3 evaluation, which we expect to
initiate in the fourth quarter of 2020. The planned Phase 3 program for CTP-543
will include two randomized, double-blind, placebo-controlled clinical trials in
adults at sites in the United States, Canada and Europe. The CTP-543 Phase 3
program will evaluate the percentage of patients receiving 8 mg twice-daily, 12
mg twice-daily or placebo twice-daily that achieve a SALT score of 20 or less
after 24 weeks of dosing in patients with moderate-to-severe alopecia areata.
CTP-692
CTP-692 Opportunity
CTP-692 is a selective deuterated analog of the endogenous amino acid D-serine,
a key molecule that activates NMDA receptors in areas of the brain that are
widely believed to play key roles in schizophrenia. Based on published
nonclinical and clinical effects of D-serine, we believe that CTP-692 has the
potential to help restore NMDA receptor activity in key areas of the brain to
improve clinical outcomes in patients with schizophrenia. Population studies
have shown that levels of D-serine measured in the plasma and cerebrospinal
fluid of patients with schizophrenia are, on average, significantly lower than
healthy controls. Genome-wide association studies demonstrate that genetic
changes that alter glutamatergic transmission, including by reducing NMDA
neurotransmission and by reducing D-serine exposure, substantially increase the
likelihood of becoming schizophrenic. Academic studies have demonstrated that
oral dosing of D-serine can result in dose-dependent improvement in positive,
negative and cognitive symptoms in patients with schizophrenia when added to
D2-modulating antipsychotics, with the exception of clozapine. However,
nonclinical studies have demonstrated that D-serine can cause nephrotoxicity in
rats. In addition, in some patients who received high doses of D-serine,
clinical findings suggesting renal impairment were observed. As a result, the
clinical development of D-serine has historically been limited.
In nonclinical studies in rats, when administered at doses where D-serine
resulted in causing significantly increased blood levels of serum creatinine and
blood urea nitrogen, indicating renal toxicity, CTP-692 did not cause changes in
blood levels of those
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markers, suggesting that CTP-692 could have reduced toxicity and a larger
therapeutic window. Administration of CTP-692 in rats also resulted in greater
plasma exposure and higher brain to plasma ratios than did similar doses of
D-serine. It therefore may be better-suited for development as a human
therapeutic agent. CTP-692 will initially be developed as an adjunctive therapy
along with standard antipsychotic medicines in patients with schizophrenia.
Clinical Development of CTP-692
The Phase 1 program was designed to assess the safety, tolerability and
pharmacokinetics of CTP-692 in healthy volunteers. The Phase 1 program included
three studies: a crossover comparison of CTP-692 versus D-serine, a
single-ascending dose study that also assessed the effect of food on the
pharmacokinetics of CTP-692, and a multiple-ascending dose trial assessing
CTP-692 dosed orally over seven days.
In the crossover study, a single dose of CTP-692 was found to result in greater
plasma exposure than did the same amount of D-serine. In the single- and
multiple-ascending dose trials, CTP-692 was evaluated across doses ranging from
0.5 to 4 grams compared to placebo in a total of 72 volunteers. CTP-692
demonstrated a favorable safety, tolerability and pharmacokinetic profile with
no serious adverse events reported. Importantly, key blood and urine markers of
kidney function did not indicate any signs of renal impairment.
In December 2019, we initiated a double-blind, randomized, placebo-controlled
Phase 2 trial to evaluate the safety and efficacy of CTP-692 as an adjunctive
treatment for schizophrenia. Approximately 300 adult patients who are stable on
an antipsychotic medication will be randomized to receive 1, 2 or 4 grams of
CTP-692 or placebo once-daily. The primary outcome measure is the change in the
Positive and Negative Syndrome Scale (PANSS) total score at 12 weeks compared to
baseline. We currently expect to complete enrollment of this clinical trial by
year-end 2020.

Preclinical Pipeline

We are currently assessing a number of preclinical assets as potential
development candidates.
COLLABORATION PRODUCT CANDIDATES
In addition to our wholly owned development programs, we have entered into
collaborative arrangements with companies to develop deuterium-modified versions
of their marketed products. Our partners are currently responsible for all
development and future commercialization activities under these arrangements. In
each of these collaborations, the deuterium-modified compound was independently
discovered by us. For example, on February 24, 2012, we entered into a
development and license agreement with Avanir Pharmaceuticals, Inc., or Avanir,
a subsidiary of Otsuka Pharmaceuticals Co., Ltd. for the worldwide rights to
develop, manufacture and commercialize AVP-786. AVP-786 is a combination of
deudextromethorphan hydrobromide (d6-DM) and quinidine sulfate (Q), a CYP2D6
inhibitor, being investigated for the treatment of neurologic and psychiatric
disorders. In 2019, Avanir completed two Phase 3 trials evaluating AVP-786 for
the treatment of agitation associated with dementia of the Alzheimer's type. The
second of the Phase 3 trials did not meet its primary or key secondary
endpoints; however, following additional data analysis, Avanir decided to
continue developing AVP-786 for the treatment of agitation associated with
dementia of the Alzheimer's type. Two additional Phase 3 trials and an open
label long-term extension study for Alzheimer's agitation are ongoing, and an
additional Phase 3 trial is planned. Additionally, Avanir is conducting a Phase
2/3 trial evaluating AVP-786 for the treatment of negative symptoms of
schizophrenia.
ASSET PURCHASE AGREEMENT WITH VERTEX PHARMACEUTICALS FOR CTP-656
In July 2017, we completed the sale of worldwide development and
commercialization rights to CTP-656 and other assets related to the treatment of
cystic fibrosis to Vertex. CTP-656, now known as VX-561, is an investigational
cystic fibrosis transmembrane conductance regulator, or CFTR, potentiator that
has the potential to be used as part of future once-daily combination regimens
of CFTR modulators that treat the underlying cause of cystic fibrosis. We
received $160 million in cash upon closing, and if VX-561 is approved as part of
a combination regimen to treat cystic fibrosis, we are eligible to receive up to
$90 million in the form of two additional milestones based on marketing approval
in the United States and agreement for reimbursement in the first of the United
Kingdom, Germany or France.
COVID-19 PANDEMIC
In March 2020, the World Health Organization declared the outbreak of a novel
strain of virus named SARS-CoV-2 (severe acute respiratory syndrome coronavirus
2), which causes coronavirus disease 2019, or COVID-19, as a pandemic, which
continues to spread throughout the United States and worldwide. We could be
materially and adversely affected by the risks, or the public perception of the
risks, related to an epidemic, pandemic or other public health crisis, such as
the COVID-19 pandemic, including but not limited to potential delays in our
clinical trials. The ultimate extent of the impact of any epidemic,
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pandemic or other public health crisis on our business, financial condition and
results of operations will depend on future developments, which are highly
uncertain and cannot be predicted, including new information that may emerge
concerning the severity of such epidemic, pandemic or other public health crisis
and actions taken to contain or prevent the further spread, among others.
Accordingly, we cannot predict the extent to which our business, financial
condition and results of operations may be affected by the COVID-19 pandemic,
but we are monitoring the situation closely.

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FINANCIAL OPERATIONS OVERVIEW
Since our inception in 2006, we have devoted substantially all of our resources
to our research and development efforts, including activities to develop our DCE
Platform and our core capabilities in deuterium chemistry, identify potential
product candidates, undertake nonclinical studies and clinical trials,
manufacture clinical trial material in compliance with current good
manufacturing practices, or cGMPs, provide general and administrative support
for these operations and establish our intellectual property. We have generated
an accumulated deficit of $228.1 million since inception through June 30, 2020
and will require substantial additional capital to fund our research and
development. We do not have any products approved for sale and have not
generated any revenue from product sales. We have funded our operations
primarily through the public offering and private placement of our equity, debt
financing, funding from collaborations and patent assignments, an asset sale and
other arrangements.

Our operating results may fluctuate significantly from year to year, depending
on the timing and magnitude of cash payments received pursuant to collaboration
and licensing arrangements and other agreements and the timing and magnitude of
clinical trial and other development activities under our current development
programs. Substantially all of our net losses have resulted from costs incurred
in connection with our research and development programs and from general and
administrative costs associated with our operations.
We expect to continue to incur significant expenses and increasing operating
losses for at least the next several years. We expect our expenses will increase
substantially in connection with our ongoing activities as we continue research
and development efforts and develop and conduct additional nonclinical studies
and clinical trials with respect to our product candidates.
We do not expect to generate revenue from product sales unless and until we, or
our collaborators, obtain marketing approval for one or more of our product
candidates, which we expect will take a number of years and is subject to
significant uncertainty. If we obtain, or believe that we are likely to obtain,
marketing approval for any product candidates for which we retain
commercialization rights, and intend to commercialize a product, we expect to
incur significant commercialization expenses related to product sales,
marketing, manufacturing and distribution. We expect to seek to fund our
operations through a combination of equity offerings, debt financings,
collaboration and licensing arrangements and other sources for at least the next
several years. However, we may be unable to raise additional funds or enter into
such other arrangements when needed on favorable terms or at all. Our failure to
raise capital or enter into such other arrangements as and when needed would
force us to delay, limit, reduce or terminate our research and development
programs and could have a material adverse effect on our financial condition and
our ability to develop our products. We will need to generate significant
revenues to achieve sustained profitability, and we may never do so.
Revenue

We have not generated any revenue from the sales of products. All of our revenue
to date has been generated through collaboration, license and research
arrangements with collaborators and nonprofit organizations for the development
and commercialization of product candidates, a patent assignment agreement and
an asset sale.
The terms of these agreements may include one or more of the following types of
payments: non-refundable license fees, payments for research and development
activities, payments based upon the achievement of specified milestones, payment
of license exercise or option fees relating to product candidates and royalties
on any net product sales. To date, we have received non-refundable upfront
payments, several milestone payments, payments for research and development
services provided to our collaborators, a change in control payment pursuant to
a patent assignment agreement and a payment for the sale of an asset. However,
we have not yet earned any license exercise or option fees, sales-based
milestone payments or royalty revenue as a result of product sales.
In the future, we will seek to generate revenue from a combination of product
sales and milestone payments and royalties on product sales in connection with
our current collaborations, our asset sale with Vertex or other collaborations
we may enter into.
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Research and development expenses
Research and development expenses consist primarily of costs incurred for the
development of our product candidates, which include:

•employee-related expenses, including salary, benefits, travel and stock-based
compensation expense;
•expenses incurred under agreements with contract research organizations and
investigative sites that conduct our clinical trials;
•the cost of acquiring, developing and manufacturing clinical trial materials;
•facilities, depreciation and other expenses, which include direct and allocated
expenses for rent and maintenance of facilities, insurance and other supplies;
•platform-related lab expenses, which includes costs related to synthesis,
analysis and in vitro and in vivo characterization of deuterated compounds to
support the selection and progression of potential product candidates;
•expenses related to consultants and advisors; and
•costs associated with nonclinical activities and regulatory operations.
Research and development costs are expensed as incurred. Costs for certain
development activities are recognized based on an evaluation of the progress to
completion of specific tasks using information and data provided to us by our
vendors and our clinical sites.
A significant portion of our research and development costs have been external
costs, which we track on a program-by-program basis. These external costs
include fees paid to investigators, consultants, central laboratories and
contract research organizations in connection with our clinical trials, and
costs related to acquiring and manufacturing clinical trial materials. Our
internal research and development costs are primarily personnel-related costs,
depreciation and other indirect costs. We do not track our internal research and
development expenses on a program-by-program basis, as they are deployed across
multiple projects under development.
The successful development of any of our product candidates is highly uncertain.
As such, at this time, we cannot reasonably predict with certainty the duration
and completion costs of the current or future clinical trials of any of our
product candidates or if, when or to what extent we will generate revenues from
the commercialization and sale of any of our product candidates that obtain
marketing approval. We may never succeed in achieving marketing approval for any
of our product candidates. The duration, costs and timing of clinical trials and
development of our product candidates will depend on a variety of factors,
including:

•the scope and rate of progress of our ongoing as well as any additional
clinical trials and other research and development activities;
•successful enrollment in and completion of clinical trials, including on
account of the COVID-19 pandemic and its impact on clinical trial sites;
•conduct of and results from ongoing as well as any additional clinical trials
and research and development activities;
•significant and changing government regulation;
•the terms and timing and receipt of any marketing approvals;
•the performance of our collaborators;
•our ability to manufacture any of our product candidates that we are developing
or may develop in the future; and
•the expense and success of filing, prosecuting, defending and enforcing any
patent claims and other intellectual property rights, including potential claims
that we infringe other parties' intellectual property.
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 cost
and timing associated with the development of that product candidate. For
example, if the FDA or another regulatory authority were to require us to
conduct clinical trials or other research and development activities beyond
those that we currently anticipate will be required for the completion of
clinical development of a product candidate, or if we experience significant
delays in enrollment in any of our clinical trials, we could be required to
expend significant additional financial resources and time on the completion of
clinical development.
Research and development activities are central to our business model. Product
candidates in later stages of clinical development generally have higher
development costs than those in earlier stages of clinical development, due to
the increased size and duration of later-stage clinical trials and the
manufacturing that is typically required for those later-stage clinical
trials. We expect research and development costs to increase significantly for
the foreseeable future as our product candidate development programs progress,
but we do not believe that it is possible at this time to accurately project
total program-specific expenses through commercialization. There are numerous
factors associated with the successful commercialization of any of our product
candidates, including future trial design and various regulatory requirements,
many of which cannot be determined
                                       27
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with accuracy at this time based on our stage of development. Additionally,
future commercial and regulatory factors beyond our control will impact our
clinical development programs and plans.
General and administrative expenses
General and administrative expenses consist primarily of salaries and related
costs for personnel, including stock-based compensation and travel expenses for
our employees in executive, operational, finance, legal, business development
and human resource functions. Other general and administrative expenses include
facility-related costs, depreciation and other expenses not allocated to
research and development expense and professional fees for directors, accounting
and legal services and expenses associated with obtaining and maintaining
patents. In both 2020 and 2019, we incurred expenses for intellectual property
matters related to CTP-543.
We anticipate that our general and administrative expenses will increase in the
future as our pipeline grows and matures. Additionally, if and when we believe
that a marketing approval of the first product candidate that we intend to
commercialize on our own appears likely, we anticipate an increase in payroll
and related expenses as a result of our preparation for commercial operations,
especially as it relates to the sales, marketing and distribution of our product
candidates.
Investment income
Investment income consists of interest income earned on cash equivalents and
investments. The amount of investment income earned in any particular period may
vary primarily as a result of the amount of cash equivalents and investments
held during the period and the types of securities included in our portfolio
during the period. Our current investment policy is to maintain a diversified
investment portfolio of U.S. government-backed securities and money market
mutual funds consisting of U.S. government-backed securities.
Unrealized loss on marketable equity securities
Unrealized loss on marketable equity securities consists of changes in the fair
value of shares of common stock of Processa held by us, as discussed further in
Note 8 in the condensed consolidated financial statements appearing elsewhere in
this Quarterly Report on Form 10-Q.
Income taxes
We record a provision or benefit for income taxes on pre-tax income or loss
based on our estimated effective tax rate for the year. As of June 30, 2020, we
forecast an ordinary pre-tax loss for the year ended December 31, 2020 and
maintain a full valuation allowance on our deferred tax assets. During the three
and six months ended June 30, 2020, we recorded a benefit for income taxes of
$85 thousand for interest accrued under the installment sales method for the
sale of CTP-656 to Vertex.
CRITICAL ACCOUNTING POLICIES AND SIGNIFICANT JUDGMENTS AND ESTIMATES
Our critical accounting policies are those policies which require the most
significant judgments and estimates in the preparation of our condensed
consolidated financial statements.

There have been no material changes to our critical accounting policies as detailed in our Annual Report on Form 10-K for the fiscal year ended December 31, 2019 filed with the SEC on February 27, 2020.

PENDING AND RECENTLY ADOPTED ACCOUNTING PRONOUNCEMENTS For detailed information regarding recently issued accounting pronouncements and the actual and expected impact on our condensed consolidated financial statements, see Note 2 in the condensed consolidated financial statements appearing elsewhere in this Quarterly Report on Form 10-Q.



RESULTS OF OPERATIONS
Discussion of the three and six months ended June 30, 2020
The following table summarizes our results of operations for the three and six
months ended June 30, 2020.
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                                                           Three Months Ended            Six Months Ended
                                                                June 30,                     June 30,
(in thousands)                                                    2020                         2020
Revenue:
License and research and development revenue             $              6,387          $           6,394
Operating expenses:
Research and development                                               14,788                     28,774
General and administrative                                              4,731                      9,403
Total operating expenses                                               19,519                     38,177
Loss from operations                                                  (13,132)                   (31,783)
Investment income                                                         355                        918
Unrealized loss on marketable equity securities                          (299)                    (2,688)
Loss before income taxes                                              (13,076)                   (33,553)
Income tax benefit                                                        (85)                       (85)
Net loss                                                 $            (12,991)         $         (33,468)

License and research and development revenue



Total revenue was $6.4 million for both the three and six months ended June 30,
2020. The revenue recognized in the 2020 periods was primarily attributable to
the expiration of two licensing options under our collaboration agreement with
Celgene.
Research and development expenses
The following table summarizes our research and development expenses for the
three and six months ended June 30, 2020, with our external research expenses
separately classified by program and our internal research expenses separately
classified by category.
                                                                        Three Months Ended           Six Months Ended
                                                                             June 30,                    June 30,
(in thousands)                                                                 2020                        2020
CTP-543 external costs                                                $           3,626            $         6,556
CTP-692 external costs                                                            4,951                      9,259

External expenses for other programs                                                151                        495
Employee and contractor-related expenses                                          4,728                      9,784
Facility and other expenses                                                       1,332                      2,680
Total research and development expenses                               $          14,788            $        28,774


Research and development expenses were $14.8 million and $28.8 million for the
three and six months ended June 30, 2020, respectively. CTP-543 expenses
primarily related to clinical development, including preparations for the Phase
3 clinical trial that is expected to begin in the fourth quarter of 2020.
CTP-543 expenses decreased by $1.4 million and $2.4 million in the three and six
months ended June 30, 2020 compared to the three and six months ended June 30,
2019, respectively, primarily due to the completion of the Phase 2 dose-ranging
clinical trial in the third quarter of 2019. CTP-692 expenses increased by $2.2
million and $2.5 million in the three and six months ended June 30, 2020
compared to the three and six months ended June 30, 2019, respectively. These
CTP-692 expenses, and their increase from the prior period, were primarily
attributable to the ongoing Phase 2 dose-ranging clinical trial. External
expenses for other programs consisted of costs incurred to develop our research
pipeline. External expenses for other programs decreased by $0.5 million and
$1.5 million in the three and six months ended June 30, 2020 compared to the
three and six months ended June 30, 2019, respectively, primarily due to a
decrease in lab activity due to the COVID-19 pandemic, and due to the payment
made during the first quarter of 2019 to the non-profit organization Fast
Forward related to the Cipla Agreement, as discussed further in Note 8 in the
condensed consolidated financial statements appearing elsewhere in this
Quarterly Report on Form 10-Q. Employee-related expenses consisted primarily of
cash compensation and non-cash stock-based compensation expenses.
Facility-related expenses consisted primarily of rent and maintenance of our
premises.
General and administrative expenses
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The following table summarizes our general and administrative expenses for the three and six months ended June 30, 2020.


                                                                   Three Months Ended June       Six Months Ended June
                                                                             30,                          30,
(in thousands)                                                              2020                          2020
Employee salaries and benefits                                     $           2,688             $          5,397
External professional service and legal expenses                                 998                        1,886
Facility, technology and other expenses                                          970                        1,970
Depreciation and amortization                                                     75                          150
Total general and administrative expenses                          $           4,731             $          9,403


General and administrative expenses decreased by $0.2 million and $1.2 million
in the 2020 periods compared to the three and six months ended June 30, 2019,
respectively, primarily due to a decrease in legal expenses.
Investment income

Investment income was $0.4 million and $0.9 million for the three and six months
ended June 30, 2020, respectively, and consisted of interest income earned on
cash equivalents and investments.
Unrealized loss on marketable equity securities
Unrealized loss on marketable equity securities was $0.3 million and
$2.7 million for the three and six months ended June 30, 2020, respectively, and
consisted of changes in the fair value of shares of common stock of Processa
held by us, as discussed further in Note 8 in the condensed consolidated
financial statements appearing elsewhere in this Quarterly Report on Form 10-Q.
Income Tax Benefit
During the three and six months ended June 30, 2020, we recorded a benefit for
income taxes of $85 thousand for interest accrued under the installment sales
method for the sale of CTP-656 to Vertex.


Discussion of the three and six months ended June 30, 2019
The following table summarizes our results of operations for the three and six
months ended June 30, 2019.
                                                         Three Months Ended             Six Months Ended
                                                              June 30,                      June 30,
(in thousands)                                                  2019                          2019
Revenue:
License and research and development revenue           $                 49          $             1,054
Operating expenses:
Research and development                                             14,496                       30,286
General and administrative                                            4,978                       10,587
Total operating expenses                                             19,474                       40,873
Loss from operations                                                (19,425)                     (39,819)
Investment income                                                       883                        1,750
Unrealized loss on marketable equity securities                        (126)                      (2,425)

Net loss                                               $            (18,668)         $           (40,494)

License and research and development revenue


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Total revenue was $49 thousand and $1.1 million for the three and six months
ended June 30, 2019, respectively. The revenue recognized in the 2019 periods
was primarily related to the Cipla Agreement, as discussed further in Note 8 in
the condensed consolidated financial statements appearing elsewhere in this
Quarterly Report on Form 10-Q.
Research and development expenses
The following table summarizes our research and development expenses for the
three and six months ended June 30, 2019, with our external research expenses
separately classified by program and our internal research expenses separately
classified by category.
                                                                       Three Months Ended         Six Months Ended June
                                                                            June 30,                       30,
(in thousands)                                                                2019                        2019
CTP-543 external costs                                                $          5,018            $          8,951
CTP-692 external costs                                                           2,758                       6,789
External expenses for other programs                                               629                       1,988
Employee and contractor-related expenses                                         4,692                       9,761
Facility and other expenses                                                      1,399                       2,797
Total research and development expenses                               $         14,496            $         30,286


Research and development expenses were $14.5 million and $30.3 million for the
three and six months ended June 30, 2019, respectively. CTP-543 expenses
primarily related to clinical development, including multiple Phase 2 clinical
trials. CTP-692 expenses were primarily attributable to the Phase 1 clinical
trials and manufacturing costs to support the continued advancement of the
program. External expenses for other programs consisted of costs incurred to
develop our research pipeline and a $0.5 million payment to the non-profit
organization Fast Forward in the first quarter of 2019 under a pre-existing
CTP-354 agreement, which was triggered by the upfront payment that Cipla paid to
us under the Cipla Agreement. Employee-related expenses consisted primarily of
cash compensation and non-cash stock-based compensation expenses.
Facility-related expenses consisted primarily of rent and maintenance of our
premises.
General and administrative expenses
The following table summarizes our general and administrative expenses for the
three and six months ended June 30, 2019.
                                                                      Three Months Ended           Six Months Ended
                                                                           June 30,                    June 30,
(in thousands)                                                               2019                        2019
Employee salaries and benefits                                      $          2,747             $         5,747
External professional service and legal expenses                               1,197                       2,808
Facility, technology and other expenses                                          959                       1,876
Depreciation and amortization                                                     75                         156
Total general and administrative expenses                           $          4,978             $        10,587


Investment income

Investment income was $0.9 million and $1.8 million for the three and six months
ended June 30, 2019, respectively, and consisted of interest income earned on
cash equivalents and investments.
Unrealized loss on marketable equity securities
Unrealized loss on marketable equity securities was $0.1 million and $2.4
million for the three and six months ended June 30, 2019, respectively, and
consisted of changes in the fair value of shares of common stock of Processa
held by us, as discussed further in Note 8 in the condensed consolidated
financial statements appearing elsewhere in this Quarterly Report on Form 10-Q.

OFF-BALANCE SHEET ARRANGEMENTS


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                         CONCERT PHARMACEUTICALS, INC.
        NOTES TO CONDENSED CONSOLIDATED FINANCIAL STATEMENTS (UNAUDITED)

We did not have during the periods presented, and we do not currently have, any
off-balance sheet arrangements, as defined in the rules and regulations of the
SEC.

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LIQUIDITY AND CAPITAL RESOURCES
We have incurred cumulative losses and negative cash flows from operations since
our inception in April 2006, and as of June 30, 2020, we had an accumulated
deficit of $228.1 million. We generated net income for the fiscal year ended
December 31, 2015 due to a one-time payment from Auspex Pharmaceuticals, Inc.,
or Auspex, under a change in control provision described in our patent
assignment agreement and again for the fiscal year ended December 31, 2017 from
the closing of our sale of CTP-656 to Vertex, but we anticipate that we will
continue to incur losses for at least the next several years. We expect that our
research and development and general and administrative expenses will continue
to increase and, as a result, we will need additional capital to fund our
operations, which we may raise through a combination of equity offerings, debt
financings, additional collaborations and licensing arrangements, and other
sources.
We have financed our operations to date primarily through the public offering
and private placement of our equity, debt financing and funding from
collaborations, patent assignments and an asset sale. In February 2014, we
completed our initial public offering whereby we sold 6,649,690 shares of common
stock at a price to the public of $14.00 per share, raising aggregate net
proceeds of $83.1 million. In March 2015, we sold 3,300,000 shares of common
stock through an underwritten public offering at a price to the public of $15.15
per share, raising aggregate net proceeds of $46.7 million. In January 2020, we
sold 5,735,283 shares of common stock through an underwritten public offering at
a price to the public of $9.92 per share. At the same time, we sold to a certain
existing investor pre-funded warrants to purchase up to an aggregate of
1,800,000 shares of common stock at a purchase price of $9.919 per pre-funded
warrant, which represents the per share public offering price for the common
stock less the $0.001 per share exercise price for each pre-funded warrant. The
aggregate net proceeds from the January 2020 offering was $70.1 million.
In June 2015, we received proceeds of $50.2 million in connection with the
change in control payment from Auspex, relating to Teva Pharmaceutical
Industries Ltd.'s acquisition of Auspex.
In July 2017, the asset purchase contemplated by the Vertex Agreement was
completed, and Vertex paid us $160 million in cash consideration.

As a result of the COVID-19 pandemic, enrollment of new patients in our clinical
trials has slowed and the timelines to complete our clinical trials may be
delayed. Our assessment of our liquidity and capital resources includes an
estimate of the financial impacts of these changes.
As of June 30, 2020, we had cash and cash equivalents and investments of $144.7
million. Cash in excess of immediate requirements is invested in accordance with
our investment policy, primarily with a view to liquidity and capital
preservation. Currently, our funds are held in U.S. government-backed securities
and money market mutual funds consisting of U.S. government-backed securities.
Cash flows
The following table sets forth the primary sources and uses of cash for each of
the periods set forth below:
                                                                         Six Months Ended June 30,
(in thousands)                                                        2020                        2019
Net cash (used in) provided by:
Operating activities                                           $      (32,524)              $     (18,025)
Investing activities                                                  (64,033)                     42,896
Financing activities                                                   70,608                       1,073

Net (decrease) increase in cash and cash equivalents and restricted cash

$      (25,949)              $      25,944


Operating activities. The cash used for operating activities generally
approximates our net loss adjusted for non-cash items and changes in operating
assets and liabilities. During the six months ended June 30, 2020, our operating
activities used cash of $32.5 million as compared to cash used by operating
activities of $18.0 million during the six months ended June 30, 2019. Cash used
in operating activities during both the six months ended June 30, 2020 and 2019
was primarily driven by our development activities associated with CTP-543 and
CTP-692, our wholly owned development programs.
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Investing activities. Net cash provided by investing activities consisted of
proceeds from the maturity of investments, purchases of investments and
purchases of fixed assets. Net cash provided by maturities of investments for
the six months ended June 30, 2020 and 2019 was $81.2 million and $92.6 million,
respectively. Net cash used in purchases of investments for the six months ended
June 30, 2020 and 2019 was $145.2 million and $49.2 million, respectively.
Purchases of fixed assets for the six months ended June 30, 2020 and 2019 were
$0.1 million and $0.5 million, respectively. The increase in the purchases of
investments during the six months ended June 30, 2020 is primarily due to the
management of funds received from the January 2020 public offering of common
stock and pre-funded warrants, as discussed further in Note 13 in the condensed
consolidated financial statements appearing elsewhere in this Quarterly Report
on Form 10-Q.

Financing activities. During the six months ended June 30, 2020 and 2019, our
financing activities provided cash of $70.6 million and $1.1 million,
respectively. The cash provided by financing activities during the six months
ended June 30, 2020 was primarily attributable to the proceeds from the January
2020 public offering of common stock and pre-funded warrants. Additionally, the
Company received proceeds of $0.5 million and $1.0 million from the exercise of
stock options during the six months ended June 30, 2020 and 2019, respectively.

Operating capital requirements



We do not anticipate commercializing any of our product candidates for several
years. Although we generated net income for the fiscal years ended December 31,
2017 and 2015 due to one-time payments from Vertex and Auspex, respectively, we
anticipate that we will continue to generate losses for the foreseeable future,
and we expect the losses to increase as we continue the development of, and seek
marketing approvals for, our product candidates, and begin to commercialize any
approved products for which we retain commercialization rights. We are subject
to all of the risks incident in the development of new drug products, and we may
encounter unforeseen expenses, difficulties, complications, delays and other
unknown factors that may adversely affect our business, as well as additional
risks stemming from the unproven nature of deuterated drugs.

Based on our current expectations, including with respect to our development
plans, we believe that our existing cash and cash equivalents and investments as
of June 30, 2020 will enable us to fund our operating expenses and capital
expenditure requirements into the second half of 2021. However, we will require
additional capital for the further development of our existing product
candidates and may also need to raise additional funds sooner to pursue other
development activities related to additional product candidates.

To date, we have not generated any revenue from product sales. We do not expect
to generate significant revenue from product sales unless and until we, or our
collaborators, obtain marketing approval of and commercialize one of our current
or future product candidates. Because our product candidates are in various
stages of development and the outcome of these efforts is uncertain, we cannot
estimate the actual amounts necessary to successfully complete development and
commercialization of our product candidates or whether or when we will achieve
profitability.

Until such time, if ever, as we can generate substantial product revenues, we
expect to finance our cash needs through a combination of equity offerings, debt
financings and additional collaborations, strategic alliances and licensing
arrangements, and other arrangements. Except for any obligations of our
collaborators to reimburse us for research and development expenses or to make
milestone payments under our agreements with them, we do not have any additional
committed external sources of funds. Additional capital may not be available on
reasonable terms, if at all. If we are unable to raise additional funds when
needed, we may be required to delay, limit, reduce or terminate our product
development or future commercialization efforts or grant rights to develop and
market product candidates that we would otherwise prefer to develop and market
ourselves. If we raise additional funds through the issuance of additional
equity or debt securities, it could result in dilution to our existing
stockholders, increased fixed payment obligations and the issuance of securities
with rights senior to those of our common stock. We may become subject to
covenants under any future indebtedness that could limit our ability to take
specific actions, such as incurring additional debt, making capital expenditures
or declaring dividends, which could adversely impact our ability to conduct our
business.

Our expectation with respect to the period of time through which our financial
resources will be adequate to support our operations is a forward-looking
statement and involves risks and uncertainties, and actual results could vary as
a result of a number of factors, including those discussed in the "Risk Factors"
section of this Quarterly Report on Form 10-Q. We have based this estimate on
assumptions that may prove to be wrong, and we could utilize our available
capital resources sooner than we currently expect. If we cannot expand our
operations or otherwise capitalize on our business opportunities because we lack
sufficient capital, our business, financial condition and results of operations
could be materially adversely affected.
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