AFFYMETRIX INC
S-8, 1999-08-19
COMMERCIAL PHYSICAL & BIOLOGICAL RESEARCH
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<PAGE>

        As filed with the Securities and Exchange Commission on August 19, 1999
                                                     Registration No. 333-_____
===============================================================================

                       SECURITIES AND EXCHANGE COMMISSION
                             Washington, D.C. 20549

                                  -------------

                                    FORM S-8
                             REGISTRATION STATEMENT

                                      UNDER
                           THE SECURITIES ACT OF 1933

                                  -------------

                                AFFYMETRIX, INC.
             (Exact name of registrant as specified in its charter)

           DELAWARE                                      77-0319159
  (State or other jurisdiction                         (IRS Employer
  of incorporation or organization)                  Identification No.)

                             3380 CENTRAL EXPRESSWAY
                              SANTA CLARA, CA 95051
               (Address of principal executive offices) (Zip Code)

                                  -------------

                                AFFYMETRIX, INC.

                            1998 STOCK INCENTIVE PLAN
                            (Full title of the Plan)


                                  -------------

                                  VERN NORVIEL
                    SENIOR VICE PRESIDENT AND GENERAL COUNSEL
                                AFFYMETRIX, INC.
                             3380 CENTRAL EXPRESSWAY
                              SANTA CLARA, CA 95051
                     (Name and address of agent for service)

                                 (408) 731-5000
          (Telephone number, including area code, of agent for service)

                                  -------------

                         CALCULATION OF REGISTRATION FEE

===============================================================================
<TABLE>
<CAPTION>

                                                 Proposed       Proposed
        Title of                                 Maximum        Maximum
       Securities                 Amount         Offering       Aggregate    Amount of
         to be                    to be           Price         Offering    Registration
       Registered               Registered (1)  per Share (2)   Price (2)       Fee
       ----------               ----------      ---------       ------      ----------
<S>                            <C>             <C>             <C>         <C>
Options                          1,000,000         N/A            N/A           N/A

Common Stock (par value $.01)    1,000,000        $67.06       $67,060,000    $18,642.68
</TABLE>
===============================================================================

(1)       This Registration Statement shall also cover any additional shares of
          Common Stock which become issuable under the 1998 Stock Incentive Plan
          by reason of any stock dividend, stock split, recapitalization or
          other similar transaction effected without the receipt of
          consideration which results in an increase in the number of the
          outstanding shares of Common Stock of Affymetrix, Inc.

(2)       Calculated solely for purposes of this offering under Rule 457(h) of
          the Securities Act of 1933, as amended, on the basis of the average of
          the high and low prices per share of Common Stock of Affymetrix, Inc.
          as reported on the Nasdaq National Market on August 13, 1999.


<PAGE>

                                     PART II

               INFORMATION REQUIRED IN THE REGISTRATION STATEMENT

Item 3.  INCORPORATION OF DOCUMENTS BY REFERENCE

         Affymetrix, Inc. (the "Registrant") hereby incorporates by reference
         into this Registration Statement the following documents previously
         filed with the Securities and Exchange Commission (the "SEC"):

         a.   The Registrant's Annual Report on Form 10-K for the fiscal
              year ended December 31, 1998;

         b.   (1) The Registrant's Quarterly Report on Form 10-Q for the fiscal
                  quarter ended March 31, 1999;

              (2) The Registrant's Quarterly Report on Form 10-Q for the fiscal
                  quarter ended June 30, 1999;

         c.   The Registrant's Current Report on Form 8-K, filed with the SEC
              on April 1, 1999;

         d.   The Registrant's Registration Statement No. 333-82685 on Form
              S-3 filed with the SEC on July 12, 1999, together with the
              amendment on Form S-3/A filed with the SEC on July 26, 1999; and

         e.   The Registrant's Registration Statement No. 0-28218 on Form 8-A
              filed with the SEC on April 16, 1996 pursuant to Section 12 of
              the Securities Exchange Act of 1934, as amended (the "1934
              Act"), together with amendments thereto, in which there is
              described the terms, rights and provisions applicable to the
              Registrant's outstanding Common Stock.

         All reports and definitive proxy or information statements filed
         pursuant to Section 13(a), 13(c), 14 or 15(d) of the 1934 Act after
         the date of this Registration Statement and prior to the filing of a
         post-effective amendment which indicates that all securities offered
         hereby have been sold or which deregisters all securities then
         remaining unsold shall be deemed to be incorporated by reference
         into this Registration Statement and to be a part hereof from the
         date of filing of such documents.

Item 4.  DESCRIPTION OF SECURITIES

         Not Applicable.

Item 5.  INTERESTS OF NAMED EXPERTS AND COUNSEL

         Not Applicable.

Item 6.  INDEMNIFICATION OF DIRECTORS AND OFFICERS

         Section 145 of the Delaware General Corporation law empowers a Delaware
         corporation to indemnify any persons who are, or are threatened to be
         made, parties to any threatened, pending or completed legal action,
         suit or proceedings, whether civil, criminal, administrative or
         investigative (other than by or in the right of such corporation), by
         reason of the fact that such person was an officer or director of such
         corporation, or is or was serving at the request of such corporation as
         a director, officer, employee or agent of another corporation or
         enterprise. Then indemnity may include expenses (including attorneys'
         fees), judgements, fines and amounts paid in settlement actually and
         reasonably incurred by such person in connection with such action, suit
         or proceeding, provided that such officer or director acted in good
         faith and in a manner he reasonably believed to be in or not opposed to
         the corporation's best interests, and, for criminal proceedings, had no
         reasonable cause to believe his conduct was illegal. A Delaware
         corporation may indemnify officers and directors in an action by or in
         the right of the corporation under the same conditions, except that no
         indemnification is permitted without judicial approval if the officer
         or director is adjudged to be liable to the corporation in the
         performance of his duty. Where an officer or director is successful on
         the merits or otherwise in the defense of any action referred to above,
         the corporation must indemnify he or she against the expenses which
         such officer or director actually and reasonably incurred.

         In accordance with Delaware law, Registrant's restated certificate of
         incorporation contains a provision to
<PAGE>

         limit the personal liability of Registrant's directors for violations
         of their fiduciary duty as a director. This provision eliminates each
         director's liability to Registrant or Registrant's stockholders for
         monetary damages except (i) for any breach of the director's duty of
         loyalty to Registrant or Registrant's stockholders, (ii) for acts or
         omissions not in good faith or which involve intentional misconduct or
         a knowing violation of law, (iii) under Section 174 of the Delaware
         General Corporation law providing for liability of directors for
         unlawful payment of dividends or unlawful stock purchases or
         redemptions, or (iv) for any transaction from which a director derived
         an improper personal benefit. The effect of this provision is to
         eliminate the personal liability of directors for monetary damages for
         actions involving a breach of their fiduciary duty of care, including
         any such actions involving gross negligence.

         Registrant's restated certificate of incorporation and bylaws provide
         for indemnification of its officers and directors to the fullest
         extended permitted by applicable law.

         Registrant has entered into indemnification agreements with each
         director and executive officer which provide indemnification to such
         directors and executive officers under certain circumstances for acts
         or omissions which may not be covered by directors' and officers'
         liability insurance.

Item 7.  EXEMPTION FROM REGISTRATION CLAIMED

         Not Applicable.

Item 8.  EXHIBITS

<TABLE>
<CAPTION>
Exhibit Number        Exhibit
- --------------        -------
<S>                   <C>
      4               Instrument Defining Rights of Stockholders. Reference is made to
                      Registrant's Registration Statement No. 0-28218 on Form 8-A, together
                      with amendments thereto, which is incorporated herein by reference
                      pursuant to Item 3(e) of this Registration Statement.

      5               Opinion and consent of Gunderson Dettmer Stough Villeneuve Franklin &
                      Hachigian, LLP.

      23.1            Consent of Ernst & Young, LLP, Independent Auditors.

      23.2            Consent of Gunderson Dettmer Stough Villeneuve Franklin & Hachigian,
                      LLP is contained in Exhibit 5.

      24              Power of Attorney. Reference is made to page II-4 of this Registration
                      Statement.
</TABLE>

Item 9.  UNDERTAKINGS

                      A. The undersigned Registrant hereby undertakes: (1) to
         file, during any period in which offers or sales are being made, a
         post-effective amendment to this Registration Statement (i) to include
         any prospectus required by Section 10(a)(3) of the 1933 Act, (ii) to
         reflect in the prospectus any facts or events arising after the
         effective date of this Registration Statement (or the most recent
         post-effective amendment thereof) which, individually or in the
         aggregate, represent a fundamental change in the information set forth
         in this Registration Statement and (iii) to include any material
         information with respect to the plan of distribution not previously
         disclosed in this Registration Statement or any material change to such
         information in this Registration Statement; PROVIDED, however, that
         clauses (1)(i) and (1)(ii) shall not apply if the information required
         to be included in a post-effective amendment by those paragraphs is
         contained in periodic reports filed by the Registrant pursuant to
         Section 13 or Section 15(d) of the 1934 Act that are incorporated by
         reference into this Registration Statement; (2) that for the purpose of
         determining any liability under the 1933 Act each such post-effective
         amendment shall be deemed to be a new registration statement relating
         to the securities offered therein and the offering of such securities
         at that time shall be deemed to be the initial bona fide offering
         thereof and (3) to remove from registration by means of a
         post-effective amendment any of the securities being registered which
         remain unsold at the termination of the Registrant's 1998 Stock
         Incentive Plan.

                      B. The undersigned Registrant hereby undertakes that, for
         purposes of determining any liability under the 1933 Act, each filing
         of the Registrant's annual report pursuant to Section 13(a) or Section


                                     II-2
<PAGE>
         15(d) of the 1934 Act that is incorporated by reference into this
         Registration Statement shall be deemed to be a new registration
         statement relating to the securities offered therein, and the offering
         of such securities at that time shall be deemed to be the initial bona
         fide offering thereof.

                      C. Insofar as indemnification for liabilities arising
         under the 1933 Act may be permitted to directors, officers or
         controlling persons of the Registrant pursuant to the indemnification
         provisions summarized in Item 6 or otherwise, the Registrant has been
         advised that, in the opinion of the SEC, such indemnification is
         against public policy as expressed in the 1933 Act, and is, therefore,
         unenforceable. In the event that a claim for indemnification against
         such liabilities (other than the payment by the Registrant of expenses
         incurred or paid by a director, officer or controlling person of the
         Registrant in the successful defense of any action, suit or proceeding)
         is asserted by such director, officer or controlling person in
         connection with the securities being registered, the Registrant will,
         unless in the opinion of its counsel the matter has been settled by
         controlling precedent, submit to a court of appropriate jurisdiction
         the question whether such indemnification by it is against public
         policy as expressed in the 1933 Act and will be governed by the final
         adjudication of such issue.


                                      II-3
<PAGE>


                                   SIGNATURES

                  Pursuant to the requirements of the Securities Act of 1933, as
         amended, the Registrant certifies that it has reasonable grounds to
         believe that it meets all of the requirements for filing on Form S-8,
         and has duly caused this Registration Statement to be signed on its
         behalf by the undersigned, thereunto duly authorized, in the City of
         Santa Clara, State of California on this 19th day of August, 1999.

                             AFFYMETRIX,  INC.


                             By:   /s/ Stephen P.A. Fodor
                                   -------------------------------------------
                                   Stephen P.A. Fodor, Ph.D.
                                   President and Chief Executive Officer,
                                   Director


                             POWER OF ATTORNEY
                             -----------------

         KNOW ALL PERSONS BY THESE PRESENTS:

                  That the undersigned officers and directors of Affymetrix,
         Inc., a Delaware corporation, do hereby constitute and appoint Stephen
         P.A. Fodor and Edward M. Hurwitz, and either of them, the lawful
         attorneys-in-fact and agents with full power and authority to do any
         and all acts and things and to execute any and all instruments which
         said attorneys and agents, and either one of them, determine may be
         necessary or advisable or required to enable said corporation to comply
         with the Securities Act of 1933, as amended, and any rules or
         regulations or requirements of the Securities and Exchange Commission
         in connection with this Registration Statement. Without limiting the
         generality of the foregoing power and authority, the powers granted
         include the power and authority to sign the names of the undersigned
         officers and directors in the capacities indicated below to this
         Registration Statement, to any and all amendments, both pre-effective
         and post-effective, and supplements to this Registration Statement, and
         to any and all instruments or documents filed as part of or in
         conjunction with this Registration Statement or amendments or
         supplements thereof, and either of the undersigned hereby ratifies and
         confirms all that said attorneys and agents, or either one of them,
         shall do or cause to be done by virtue hereof. This Power of Attorney
         may be signed in several counterparts.

                  IN WITNESS WHEREOF, each of the undersigned has executed this
         Power of Attorney as of the date indicated.

                  Pursuant to the requirements of the Securities Act of 1933, as
         amended, this Registration Statement has been signed below by the
         following persons in the capacities and on the dates indicated.

<TABLE>
<CAPTION>
Signature                                       Title                                              Date
- ---------                                       -----                                              ----
<S>                                             <C>                                             <C>
/s/ Stephen P.A. Fodor                          President and Chief Executive Officer           August 19, 1999
- -----------------------------                   and Director
Stephen P.A. Fodor, Ph.D.                       (Principal Executive Officer)

/s/ Edward M. Hurwitz                           Vice President and                              August 19, 1999
- -----------------------------                   Chief Financial Officer
Edward M. Hurwitz                               (Principal Financial and Accounting Officer)

/s/ John D. Diekman                             Chairman of the Board                           August 19, 1999
- -----------------------------
John D. Diekman, Ph.D.
</TABLE>


                                     II-4
<PAGE>

<TABLE>
<CAPTION>
Signature                                        Title                              Date
- ---------                                        -----                              ----
<S>                                              <C>                             <C>



/s/ Paul Berg                                    Director                        August 19, 1999
- -----------------------------
Paul Berg, Ph.D.


/s/ Adrian Hennah                                Director                        August 19, 1999
- -----------------------------
Adrian Hennah


/s/ Vernon R. Loucks, Jr.                        Director                        August 19, 1999
- -----------------------------
Vernon R. Loucks, Jr.


/s/ Barry C. Ross                                Director                        August 19, 1999
- -----------------------------
Barry C. Ross, Ph.D.

/s/ David B. Singer                              Director                        August 19, 1999
- -----------------------------
David B. Singer


/s/ Lubert Stryer                                Director                        August 19, 1999
- -----------------------------
Lubert Stryer, M.D.


/s/ John A. Young                                Director                        August 19, 1999
- -----------------------------
John A. Young
</TABLE>


                                      II-5
<PAGE>

                                  EXHIBIT INDEX

<TABLE>
<CAPTION>
Exhibit Number      Exhibit
- --------------      -------
<S>                 <C>
     4              Instrument Defining Rights of Stockholders. Reference is
                    made to Registrant's Registration Statement No. 0-28218 on
                    Form 8-A, together with amendments thereto, which is
                    incorporated herein by reference pursuant to Item 3(e) of
                    this Registration Statement.

     5              Opinion and consent of Gunderson Dettmer Stough Villeneuve
                    Franklin & Hachigian, LLP.

     23.1           Consent of Ernst & Young, LLP, Independent Auditors.

     23.2           Consent of Gunderson Dettmer Stough Villeneuve Franklin &
                    Hachigian, LLP is contained in Exhibit 5.

     24             Power of Attorney. Reference is made to page II-4 of this
                    Registration Statement.
</TABLE>

<PAGE>

                                                                       EXHIBIT 5

                                August 19, 1999



Affymetrix, Inc.
3380 Central Expressway
Santa Clara, CA 95051

          Re:       Affymetrix, Inc. Registration Statement for Offering of an
                    Aggregate of 1,000,000 Shares of Common Stock

Ladies and Gentlemen:

          We refer to your registration on Form S-8 (the "Registration
Statement") under the Securities Act of 1933, as amended, of 1,000,000 shares
of Common Stock under the 1998 Stock Incentive Plan. We advise you that, in
our opinion, when such shares have been issued and sold under the applicable
provisions of the 1998 Stock Incentive Plan, and in accordance with the
Registration Statement, such shares will be validly issued, fully paid and
nonassessable shares of the Company's Common Stock.

          We hereby consent to the filing of this opinion as an exhibit to
the Registration Statement.


                                 Very truly yours,

                                 /s/ Gunderson Dettmer Stough
                                     Villeneuve Franklin & Hachigian, LLP

                                 Gunderson Dettmer Stough
                                 Villeneuve Franklin & Hachigian, LLP


<PAGE>

                                                             EXHIBIT 23.1

               CONSENT OF ERNST & YOUNG LLP, INDEPENDENT AUDITORS

We consent to the incorporation by reference to the Registration Statement
(Form S-8) of Affymetrix, Inc., pertaining to the 1998 Stock Incentive Plan,
of our report dated January 29, 1999 (except for Note 11, as to which the
date is March 25, 1999) with respect to the financial statements and schedule
of Affymetrix, Inc. included in its Annual Report (Form 10-K) for the year
ended December 31, 1998, filed with the Securities and Exchange Commission.


/s/ Ernst & Young LLP

Palo Alto, California
August 18, 1999


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