<PAGE>
FILED PURSUANT TO RULE 424(B)(3) PROSPECTUS SUPPLEMENT DATED MARCH 22, 2000
REGISTRATION NO. 333-92577 TO PROSPECTUS DATED FEBRUARY 9, 2000
CUSIP NO. 00826TAB4
AFFYMETRIX, INC.
$150,000,000
5% CONVERTIBLE SUBORDINATED NOTES DUE 2006 AND
1,219,515 SHARES OF COMMON STOCK ISSUABLE UPON CONVERSION OF THE NOTES
This prospectus supplement supplements information contained in the
prospectus dated February 9, 2000 relating to the potential sale from time to
time of up to $150,000,000 aggregate amount of notes and the common stock into
which the notes are convertible. This prospectus supplement is not complete
without, and may not be delivered or utilized except in connection with, the
prospectus, including any amendments or supplements to it.
The following table supplements the information set forth in the prospectus
under the caption "Selling Security Holders" with respect to the selling holders
and the respective principal amounts of notes beneficially owned by the selling
holder that may be offered pursuant to the prospectus, as amended or
supplemented:
<TABLE>
<CAPTION>
PRINCIPAL AMOUNT COMMON STOCK COMMON STOCK
OF NOTES ISSUABLE UPON OWNED AFTER
BENEFICIALLY OWNED CONVERSION OF COMMON STOCK COMPLETION OF
NAME AND OFFERED THE NOTES OFFERED THE OFFERING
- ---- ------------------ ------------- ------------- -------------
<S> <C> <C> <C> <C>
AIG SoundShore Holdings Ltd............. 18,000,000 146,342 146,342 --
BNP Arbitrage SNC....................... 6,000,000 48,781 48,781 8,700
Boulder II Limited...................... 8,600,000 69,919 69,919 --
Boulder Capital Inc..................... 5,425,000 44,106 44,106 --
Credit Suisse First Boston
Corporation........................... 39,838,000 323,887 323,887 --
JMG Triton Offshore Fund, Ltd........... 3,480,000 28,293 28,293 --
Island Holdings......................... 37,000 301 301 --
Nalco Chemical Company.................. 200,000 1,627 1,627 --
Onex Industrial Partners Limited........ 3,475,000 28,253 28,253 --
Pebble Capital Inc...................... 1,500,000 12,196 12,196 --
Shepherd Investments International,
Ltd................................... 1,832,000 14,895 14,895 --
Stark International..................... 2,748,000 22,342 22,342 --
State of Oregon Equity.................. 7,230,000 58,781 58,781 --
State of Oregon/SAIF Corporation........ 4,280,000 34,797 34,797 --
</TABLE>
None of the selling holders nor any of their affiliates, officers, directors
or principal equity holders has held any position or office or has had any
material relationship with us within the past three years, except that Robertson
Stephens and Credit Suisse First Boston were initial purchasers in connection
with the offer and sale of the notes in September 1999, and Credit Suisse First
Boston from time to time performs investment banking services for which it
receives customary fees.
