LYNX THERAPEUTICS INC
10-Q, 1997-05-09
MEDICINAL CHEMICALS & BOTANICAL PRODUCTS
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                                  UNITED STATES
                       SECURITIES AND EXCHANGE COMMISSION
                             WASHINGTON, D.C. 20549


                                    FORM 10-Q


  X      QUARTERLY  REPORT  PURSUANT  TO SECTION  13 OR 15(d) OF THE  SECURITIES
- -----    EXCHANGE ACT OF 1934 FOR THE QUARTERLY PERIOD ENDED MARCH 31, 1997.

                                       OR

         TRANSITION  REPORT  PURSUANT  TO SECTION 13 OR 15(d) OF THE  SECURITIES
- -----    EXCHANGE ACT OF 1934 FOR THE TRANSITION PERIOD FROM_______TO_______.


                         Commission File Number 0-22570


                             Lynx Therapeutics, Inc.
             (Exact name of registrant as specified in its charter)


          Delaware                                             94-3161073
(State or other jurisdiction of                             (I.R.S. Employer
incorporation or organization)                             Identification No.)


        3832 Bay Center Place
               Hayward, CA                                         94545
(Address of principal executive offices)                         (Zip Code)


                                 (510) 670-9300
              (Registrant's telephone number, including area code)


Indicate by check mark whether the registrant (1) has filed all reports required
to be filed by Section 13 or 15(d) of the Securities Exchange Act of 1934 during
the  preceding 12 months (or for such  shorter  period that the  Registrant  was
required  to file  such  reports),  and  (2) has  been  subject  to such  filing
requirements for the past 90 days.

                                            Yes  X  No     
                                               -----  -----


The  number of  shares  of Common  Stock,  Series B  Preferred  Stock,  Series C
Preferred Stock, and Series D Preferred Stock  outstanding as of March 31, 1997,
were 3,140,672, 332,288, 123,299 and 40,000, respectively.  The Series B, Series
C  and  Series  D  Preferred  Stock  are  convertible  into  Common  Stock  on a
ten-for-one  basis.  Information  regarding  the  aggregate  market value of the
Registrant's  voting  stock  is not  included  because  there  is  currently  no
established public trading market for the Company's voting stock.


                                                                     Page 1 of 9
<PAGE>

                             Lynx Therapeutics, Inc.

<TABLE>
                                      INDEX


<CAPTION>
PART I       FINANCIAL INFORMATION                                                Page

<S>          <C>                                                                     <C>
Item 1.      Condensed Consolidated Balance Sheets - March 31, 1997
                 and December 31, 1996...........................................    3

             Condensed Consolidated Statements of Operations - three months
                  ended March 31, 1997 and 1996..................................    4

             Condensed Consolidated Statements of Cash Flows - three months
                 ended March 31, 1997 and 1996...................................    5

             Notes to Condensed Consolidated Financial Statements................    6

Item 2.      Management's Discussion and Analysis of
                 Financial Condition and Results of Operations...................    7


PART II      OTHER INFORMATION

Item 1.      Legal Proceedings...................................................    9

Item 2.      Changes in Securities...............................................    9

Item 3.      Defaults Upon Senior Securities.....................................    9

Item 4.      Submission of Matters to a Vote of Security Holders.................    9

Item 5.      Other Information...................................................    9

Item 6.      Exhibits and Reports on Form 8-K....................................    9

Signatures   ....................................................................    9
</TABLE>


                                                                     Page 2 of 9
<PAGE>

PART I            FINANCIAL INFORMATION
Item 1.           Financial Statements

<TABLE>
                                              Lynx Therapeutics, Inc.
                                       CONDENSED CONSOLIDATED BALANCE SHEETS
                                                  (In thousands)
<CAPTION>
                                                             March 31,           December 31,
                                                               1997                 1996*
                                                             --------------------------------
                                                             Unaudited)
<S>                                                           <C>                  <C>      
Assets
Current assets:
   Cash and cash equivalents                                  $  10,409            $  12,109
   Short-term investments                                            --                1,973
   Accounts receivable                                               72                  118
   Other current assets                                              91                  158
                                                             --------------------------------
Total current assets                                             10,572               14,358

Property and equipment:
   Leasehold improvements                                         3,810                3,193
   Laboratory and other equipment                                 3,224                2,976
                                                             --------------------------------
                                                                  7,034                6,169
   Less accumulated depreciation and amortization                (2,590)              (2,290)
                                                             --------------------------------
Net property and equipment                                        4,444                3,879

Notes receivable from employees                                     180                  175
                                                             --------------------------------
                                                             $   15,196           $   18,412
                                                             ================================
Liabilities and stockholders' equity 
Current liabilities:
   Accounts payable                                          $      503           $      429
   Accrued compensation and vacation                                365                  394
   Accrued professional fees                                        125                  169
   Deferred revenue from related parties - current                3,500                3,875
   Other accrued liabilities                                        255                  373
                                                             --------------------------------
Total current liabilities                                         4,748                5,240

Deferred revenue from related parties - long-term                 1,604                2,292
Other noncurrent liabilities                                        156                  148

Stockholders' equity:
   Preferred stock                                               27,189               27,189
   Common stock                                                  17,329               17,361
   Notes receivable from stockholders                              (210)                (210)
   Deferred compensation                                         (1,912)              (2,092)
   Unrealized gain on marketable securities                           5                    3
   Accumulated deficit                                          (33,713)             (31,519)
                                                             --------------------------------
Total stockholders' equity                                        8,688               10,732
                                                             --------------------------------
                                                             $   15,196           $   18,412
                                                             ================================
<FN>
*The Balance  Sheet  amounts at December 31, 1996 have been derived from audited
   financial  statements at that date but do not include all of the  information
   and  footnotes  required by  generally  accepted  accounting  principles  for
   complete financial statements.

                                              See accompanying notes.
</FN>
</TABLE>

                                                                     Page 3 of 9
<PAGE>

                             Lynx Therapeutics, Inc.
                 CONDENSED CONSOLIDATED STATEMENTS OF OPERATIONS
               (In thousands, except share and per share amounts)
                                   (Unaudited)


                                                        Three Months Ended
                                                           March 31,
                                                     --------------------------
                                                       1997             1996
                                                       ----             ----
Net revenues:
   Revenues from collaborative arrangements with      $  1,063        $    375
      related parties
   Other revenues                                           72             117
                                                     --------------------------
Total revenues                                           1,135             492

Operating  expenses:
   Research and development                              3,075           2,405
   General and administrative                              425             544
                                                     --------------------------
Total operating  expenses                                3,500           2,949
                                                     --------------------------

Loss from operations                                    (2,365)         (2,457)

Interest income                                            171             187
                                                     --------------------------
Net loss                                              $ (2,194)       $ (2,270)
                                                     ==========================

Net loss per share                                     $ (0.70)        $ (0.97)
                                                     ==========================

Shares used in per share computation                 3,144,627       2,334,826
                                                     ==========================


                             See accompanying notes.




                                                                     Page 4 of 9
<PAGE>

<TABLE>
                                              Lynx Therapeutics, Inc.
                                  CONDENSED CONSOLIDATED STATEMENTS OF CASH FLOWS
                                                  (In thousands)
                                                    (Unaudited)
<CAPTION>
                                                                                       Three Months Ended
                                                                                           March 31,
                                                                                     -------------------------
                                                                                       1997             1996
                                                                                       ----             ----
<S>                                                                                  <C>             <C>      
Cash flows from operating activities
Net loss                                                                             $  (2,194)      $ (2,270)
Adjustments to reconcile net loss to net cash used in operating activities:
     Depreciation and amortization                                                         300            216
     Deferred compensation                                                                 180             --
     Changes in operating assets and liabilities:
         Accounts receivable                                                                46            (29)
         Other current assets                                                               67           (147)
         Accounts payable                                                                   74           (432)
         Accrued liabilities                                                              (191)           (24)
         Deferred revenue from related party                                            (1,063)          (375)
         Other noncurrent liabilities                                                        8             15
                                                                                     -------------------------
Net cash used in operating activities                                                   (2,773)        (3,046)

Cash flows from investing activities
Purchases of short-term investments                                                         --           (994)
Maturities of short-term investments                                                     1,975             --
Purchases of property and equipment                                                       (865)          (318)
Notes receivable from employees                                                             (5)          (190)
                                                                                     -------------------------
Net cash provided by (used in) investing activities                                      1,105         (1,502)

Cash flows from financing activities
Issuance (repurchase) of common stock                                                      (32)             7
                                                                                     -------------------------
Net cash provided by (used in) financing activities                                        (32)             7
                                                                                     -------------------------

Net decrease in cash and cash equivalents                                               (1,700)        (4,541)
Cash and cash equivalents at beginning of period                                        12,109         13,779
                                                                                     -------------------------
Cash and cash equivalents at end of period                                           $  10,409       $  9,238
                                                                                     =========================
<FN>

                                              See accompanying notes.
</FN>
</TABLE>

                                                                     Page 5 of 9
<PAGE>


                             Lynx Therapeutics, Inc.
                   NOTES TO CONSOLIDATED FINANCIAL STATEMENTS

                                 March 31, 1997
                                   (Unaudited)


1.       Ownership and nature of business

         Lynx was formed to discover and target inappropriate gene expression in
disease.  The Company's early efforts relied on academic  collaborations for the
discovery and understanding of altered or inappropriate gene function and on its
own expertise in synthetic DNA  ("oligodeoxynucleotide"  or "ODN") chemistry for
the development of compounds aimed at modulating  undesirable  gene  expression.
These  early  collaborations  resulted  in a number  of  compounds  aimed at the
prevention of restenosis following balloon angioplasty and certain leukemias and
cancers.  The Company has  recently  initiated  an internal  biology-based  drug
discovery  program  designed  around  in  vitro  and in  vivo  models  of  acute
biological  stress or  injury.  This  program  is  currently  focused  on models
relevant to diseases  resulting from brain and spinal cord injuries.  Its aim is
to  better  define  and  characterize  gene  function  and  inappropriate   gene
expression in diseases of interest.  The Company has also established a group to
focus on the development of new and proprietary DNA sequencing technologies that
would be capable of  accelerating  the discovery  and  validation of targets for
drug  discovery.  Foremost  among  these are the  Massively  Parallel  Signature
Sequencing  ("MPSS") and the  Massively  Parallel  Genomic  Sequencing  ("MPGS")
technologies. The first is designed to enable researchers to identify a majority
of the genes  expressed  by living  cells  whether  in culture or in a tissue of
interest. The second is designed to enable the simultaneous  sequencing of up to
a million genomic fragments in order to arrive rapidly at genomic sequences. The
Company  is  currently  refining  various  aspects  of  the  biochemistries  and
instrumentation needed to implement these technologies.

2.       Basis of presentation

         The accompanying  condensed  consolidated financial statements included
herein have been prepared by the Company  without  audit,  pursuant to the rules
and  regulations  promulgated  by the Securities  and Exchange  Commission  (the
"Commission"). Certain prior year amounts have been reclassified to conform with
current year presentation. Certain information and footnote disclosures normally
included in financial  statements prepared in accordance with generally accepted
accounting  principles  have  been  omitted  pursuant  to  Commission  rules and
regulations;  nevertheless,  the  Company  believes  that  the  disclosures  are
adequate to make the  information  presented not  misleading.  In the opinion of
management, the financial statements contain all adjustments, consisting only of
normal  recurring  adjustments,   necessary  to  present  fairly  the  financial
position,  results of  operations  and cash flows of the Company for the interim
periods  presented.  The results of  operations  for the quarter ended March 31,
1997, are not necessarily indicative of the results for the full year.

         The unaudited condensed  consolidated  financial statements include all
accounts of the  Company.  Lynx has  dissolved  its majority  owned  subsidiary,
LYNXNebraska,  Inc.,  with no consequent  impact on the financial  statements of
Lynx.

         These  financial  statements  should  be read in  conjunction  with the
audited  consolidated  financial  statements and notes thereto for the Company's
year ended December 31, 1996.


                                                                     Page 6 of 9
<PAGE>


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

         Except for the historical  information  contained herein, the following
discussion   contains   forward-looking   statements   that  involve  risks  and
uncertainties.  The Company's actual results could differ  materially from those
discussed  here.  Factors  that could cause or  contribute  to such  differences
include,  but are not limited to, those discussed in this section, as well as in
the Company's  annual report (Form 10-K) filed with the  Securities and Exchange
Commission for the fiscal year ended December 31, 1996.

Overview

         Since its inception in July 1989 (as a division of Applied  Biosystems,
Inc. or "ABI"),  Lynx has devoted its efforts toward  research,  drug discovery,
and development programs. Lynx has been unprofitable since its inception and may
incur  substantial  losses for the next  several  years,  due  primarily  to the
expansion of its research and development programs, including development of its
phosphoramidate  chemistry,  MPSS and MPGS technologies,  as well as preclinical
studies and clinical trials.  Lynx may generate revenues based on its agreements
with collaborative partners as a result of achievement of the milestones defined
in the  agreements.  However,  there is no guarantee that the milestones will be
achieved  or that the  technologies  will be  proven  successful.  Lynx does not
anticipate that it will generate  significant revenues and profits, if any, from
the  commercial  sale of its  products  and  services  for several  years if not
longer.  There can be no assurance that Lynx will ever successfully  develop and
market any of its  proposed  products or that it will ever be able to achieve or
sustain profitability.

         Lynx's  business is subject to significant  risks,  including the risks
inherent in its research and development efforts,  uncertainties associated with
obtaining and enforcing patents,  the lengthy and expensive  regulatory approval
process,  and  possible  competition  from other  products.  The MPSS program is
dependent upon the successful integration of independent  technologies,  each of
which  has  its own  development  risks.  In  addition,  Lynx's  MPSS  and  MPGS
technologies could face competition from the development of similarly efficient,
or better,  combinations  of novel cloning and  sequencing  techniques.  Even if
Lynx's therapeutic  compounds appear promising at an early stage of development,
they may not reach the market for a number of reasons. Such reasons include, but
are not limited to, the  possibilities  that the compounds are found to be toxic
or  ineffective  during  clinical  trials,  the  failure  to  receive  necessary
regulatory  approvals,  the difficulty to  manufacture on a large scale,  or the
inability to market a compound due to proprietary rights of third parties.

Results of Operations

Revenue

         Lynx had total revenues of approximately  $1.1 million and $492,000 for
the quarters  ended March 31, 1997 and 1996  respectively.  The 1997 revenue was
comprised of $1,063,000  earned under  collaborative  agreements  with corporate
partners  and  $72,000  earned from a  government  grant.  The 1996  revenue was
comprised of $375,000  earned under a  collaborative  agreement with a corporate
partner and $117,000  earned from a government  grant.  Revenue will continue to
fluctuate  based on activity  with  current and  potential  corporate  partners,
achievement of milestones, and timing of government grant funding.

Operating Expenses

         Research and development expenses were $3.1 million and $2.4 million in
the quarters ended March 31, 1997 and 1996,  respectively.  The increase was due
to the costs associated with increased  research  staffing,  the amortization of
deferred  compensation  recorded in  conjunction  with the  Agreement  of Merger
between Lynx and its majority  owned  subsidiary,  Spectragen,  Inc. in November


                                                                     Page 7 of 9
<PAGE>

1996,  and  clinical  trial costs  associated  with the LR-3280  compound.  Lynx
expects to incur  substantial and increasing  research and development  expenses
due to planned spending for ongoing research and development  activities and new
research applications.

         General and administrative expenses were $425,000 for the quarter ended
March 31, 1997,  compared to $544,000 for the quarter ended March 31, 1996.  The
decrease was due to lower investor relations costs compared to the first quarter
of 1996 in which the costs of the  reverse  stock split were  reflected,  and to
lower  headcount-related  costs.  Lynx expects to continue to incur  substantial
administrative  expenses in support of its  research and  corporate  development
efforts.

Interest Income

         Interest  income was $171,000 and $187,000 for the quarters ended March
31, 1997 and 1996 respectively.

Liquidity and Capital Resources

         Since  commencing  operations  as  an  independent  Company,  Lynx  has
obtained funding for its operations  through sales of Preferred and Common Stock
to  venture  capital   investors  and  collaborative   partners,   revenue  from
collaborative  research and development  arrangements,  interest income, product
sales, and government grants. Lynx may receive additional collaborative research
payments from its existing partners (Hoechst,  Tanabe,  Schwarz Pharma and BASF)
and an equity  investment from Hoechst,  subject to achieving the milestones set
forth in the various agreements.

         Net cash used in operating  activities  of $2.8 million for the quarter
ended March 31, 1997,  differs  from the net loss for the same period  primarily
due to current period  recognition of a portion of previously  deferred revenue,
depreciation  and  amortization,  and deferred  compensation  expense.  Net cash
provided by investing activities related to maturities of short-term investments
partially offset by costs associated with the expansion of laboratory facilities
and  purchases  of  capital   equipment.   Lynx  expects  that  future   capital
expenditures  will be  commensurate  with growth in the employee base.  Cash and
equivalents were $10.4 million at March 31, 1997.

         Lynx  is  currently   utilizing  its  available  funds  for  supporting
development of its MPSS technology,  funding  preclinical  research and clinical
trials and the planned growth in Lynx's internal efforts toward  research,  drug
discovery, and development programs.  Pending such uses as described above, Lynx
intends  to  invest   its  excess   cash  in   short-term,   investment   grade,
interest-bearing securities or certificates of deposit.

         The timing  and  amount of funds  required  for  specific  uses by Lynx
cannot  be  precisely  determined  at this  time and will be based  upon  Lynx's
progress in its research and  development,  the scope and results of preclinical
research  and  clinical  trials,  the cost and timing of  regulatory  approvals,
administrative and legal costs, the establishment of corporate  partnerships and
the  availability  of alternate  methods of  financing.  Lynx  believes that its
current capital resources and interest income thereon will enable it to maintain
its  current and planned  operations  through at least 1997.  From time to time,
Lynx  may seek to  raise  additional  funding  through  the  sale of its  equity
securities  or through  corporate  collaborations  with  existing  or  potential
corporate  partners.  There can be no assurance  that any  additional  financing
required by Lynx will be available or, if available,  will be on terms favorable
to Lynx.


                                                                     Page 8 of 9
<PAGE>

PART II           OTHER INFORMATION

Item 1.           Legal Proceedings

                      None

Item 2.           Changes in Securities

                      None

Item 3.           Defaults upon Senior Securities

                      None

Item 4.           Submission of Matters to a Vote of Security Holders

                      None

Item 5.           Other Information

                      None

Item 6.           Exhibits and Reports on Form 8-K.

                      a)   Exhibits  - The  following  document  is  filed as an
                           Exhibit to this report:

                           Exhibit
                           Number                Description
                           ------                -----------
                           27.1                  Financial Data Table

                      b)   No reports on Form 8-K were filed  during the quarter
                           ended March 31, 1997.


                                   SIGNATURES

         Pursuant to the  requirements  of the Securities  Exchange Act of 1934,
the  registrant  has duly  caused  this report to be signed on its behalf by the
undersigned, thereunto duly authorized.


                                           LYNX THERAPEUTICS, INC.


                                           /s/  Sam Eletr
                                           -------------------------------------
                                           By:      Sam Eletr, Ph.D.
                                                    Chief Executive Officer and
                                                    Chairman of the Board
                                           Date:    May 9, 1997


                                           /s/  Edward C. Albini
                                           -------------------------------------
                                           By:      Edward C. Albini
                                                    Chief Financial Officer
                                                    (Principal Financial and
                                                    Accounting Officer)
                                           Date:    May 9, 1997


                                                                     Page 9 of 9

<TABLE> <S> <C>

<ARTICLE>                                                              5

<LEGEND>
               THIS SCHEDULE  CONTAINS SUMMARY FINANCIAL  INFORMATION  EXTRACTED
               FROM THE  ANNUAL  REPORT  PURSUANT  TO SECTION 13 OR 15(d) OF THE
               SECURITIES  EXCHANGE  ACT OF 1934 FOR THE FORM 10-Q PERIOD  ENDED
               MARCH 31, 1997
</LEGEND>

<MULTIPLIER>                                                       1,000
       
<S>                                                                  <C>
<PERIOD-TYPE>                                                      3-MOS
<FISCAL-YEAR-END>                                            DEC-31-1997
<PERIOD-START>                                                JAN-1-1997
<PERIOD-END>                                                 MAR-31-1997
<CASH>                                                            10,409
<SECURITIES>                                                           0
<RECEIVABLES>                                                         72
<ALLOWANCES>                                                           0
<INVENTORY>                                                            0
<CURRENT-ASSETS>                                                  10,572
<PP&E>                                                             7,034
<DEPRECIATION>                                                     2,590
<TOTAL-ASSETS>                                                    15,196
<CURRENT-LIABILITIES>                                              4,748
<BONDS>                                                                0
<COMMON>                                                          17,329
                                                  0
                                                       27,189
<OTHER-SE>                                                        35,830
<TOTAL-LIABILITY-AND-EQUITY>                                      15,196
<SALES>                                                                0
<TOTAL-REVENUES>                                                   1,135
<CGS>                                                                  0
<TOTAL-COSTS>                                                          0
<OTHER-EXPENSES>                                                   3,500
<LOSS-PROVISION>                                                       0
<INTEREST-EXPENSE>                                                     0
<INCOME-PRETAX>                                                  (2,194)
<INCOME-TAX>                                                           0
<INCOME-CONTINUING>                                              (2,194)
<DISCONTINUED>                                                         0
<EXTRAORDINARY>                                                        0
<CHANGES>                                                              0
<NET-INCOME>                                                     (2,194)
<EPS-PRIMARY>                                                     (0.70)
<EPS-DILUTED>                                                     (0.70)
        


</TABLE>


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