AVIGEN INC \DE
424B5, 2000-11-15
IN VITRO & IN VIVO DIAGNOSTIC SUBSTANCES
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<PAGE>   1

                                                  Filed Pursuant to Rule 424b(5)
                                                  Registrant No. 333-47680


                              PROSPECTUS SUPPLEMENT
                                      NO. 2
                     (TO PROSPECTUS DATED OCTOBER 30, 2000)

                                  AVIGEN, INC.

                                 694,441 SHARES

                                  COMMON STOCK


        We are offering 694,441 shares of our common stock to selected investors
pursuant to this prospectus supplement and the accompanying prospectus. The
common stock is being offered at the negotiated purchase price of $45 3/16 per
share. The purchase price reflects the last reported sale price of shares of our
common stock on the Nasdaq National Market on November 13, 2000. The common
stock is listed on the Nasdaq National Market under the symbol "AVGN."

        INVESTING IN AVIGEN COMMON STOCK INVOLVES A HIGH DEGREE OF RISK. SEE
"RISK FACTORS" BEGINNING ON PAGE S-4.


        We expect the total offering expenses, exclusive of placement agent and
finders fees, to be $100,000 for all sales pursuant to the prospectus
supplemented by this prospectus supplement.

        The shares are being offered by us principally to selected institutional
investors. Granite Financial Group has been retained to act, on a best efforts
basis, as placement agent for us in connection with the arrangement of this
transaction. We have agreed to pay the placement agent a fee of $1.35 per share.
We have also agreed to pay certain entities that have acted as finders,
introducing us to prospective investors, fees ranging from 4.75% to 5% of the
gross proceeds from the sales of shares to the investors introduced to us by
these finders. These fees are more fully described in "Plan of Distribution"
beginning on page S-16 of this prospectus supplement. If all of the shares
offered by this prospectus supplement are sold, we will receive aggregate
proceeds, net of placement agent and finders fees but before deducting other
offering expenses, of $29,911,071.


        THE SHARES OF AVIGEN COMMON STOCK OFFERED OR SOLD UNDER THIS PROSPECTUS
SUPPLEMENT AND PROSPECTUS HAVE NOT BEEN APPROVED BY THE SEC OR ANY STATE
SECURITIES COMMISSION, NOR HAVE THESE ORGANIZATIONS DETERMINED THAT THIS
PROSPECTUS SUPPLEMENT OR PROSPECTUS IS ACCURATE OR COMPLETE. ANY REPRESENTATION
TO THE CONTRARY IS A CRIMINAL OFFENSE.


          The date of this prospectus supplement is November 14, 2000.



<PAGE>   2

        NO DEALER, SALES PERSON OR OTHER PERSON HAS BEEN AUTHORIZED TO GIVE ANY
INFORMATION OR TO MAKE ANY REPRESENTATIONS NOT CONTAINED IN THIS PROSPECTUS
SUPPLEMENT OR PROSPECTUS, AND, IF GIVEN OR MADE, SUCH OTHER INFORMATION OR
REPRESENTATION MUST NOT BE RELIED UPON AS HAVING BEEN AUTHORIZED BY AVIGEN. THIS
PROSPECTUS SUPPLEMENT OR PROSPECTUS DOES NOT CONSTITUTE AN OFFER TO SELL, OR A
SOLICITATION OF AN OFFER TO BUY, ANY SECURITY OTHER THAN THE NOTES OR CONVERSION
SHARES OFFERED BY THIS PROSPECTUS SUPPLEMENT AND PROSPECTUS, NOR DOES IT
CONSTITUTE AN OFFER TO SELL OR A SOLICITATION OF AN OFFER TO BUY ANY OF THE
NOTES OR CONVERSION SHARES TO ANYONE IN ANY JURISDICTION WHERE, OR TO ANY PERSON
TO WHOM, IT WOULD BE UNLAWFUL TO MAKE SUCH AN OFFER OR SOLICITATION. NEITHER THE
DELIVERY OF THIS PROSPECTUS SUPPLEMENT OR PROSPECTUS NOR ANY SALE MADE UNDER
THIS PROSPECTUS SUPPLEMENT AND PROSPECTUS SHALL UNDER ANY CIRCUMSTANCES, CREATE
AN IMPLICATION THAT THERE HAS BEEN NO CHANGE IN THE AFFAIRS OF AVIGEN SINCE THE
DATE OF THIS PROSPECTUS SUPPLEMENT OR IMPLY THAT INFORMATION CONTAINED IN THIS
PROSPECTUS SUPPLEMENT AND PROSPECTUS IS CORRECT AS OF ANY TIME SUBSEQUENT TO ITS
DATE.

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

                                TABLE OF CONTENTS
<TABLE>
<CAPTION>


                                                                                        PAGE
<S>                                                                                     <C>
Prospectus Supplement Summary............................................................S-3

Risk Factors.............................................................................S-4

Disclosure Regarding Forward-Looking Statements.........................................S-14

Dividend Policy.........................................................................S-14

Use of Proceeds.........................................................................S-14

Price Range of Common Stock.............................................................S-15

Dilution................................................................................S-15

Plan of Distribution....................................................................S-16

Legal Matters...........................................................................S-17
</TABLE>



                                      S-2.
<PAGE>   3

                          PROSPECTUS SUPPLEMENT SUMMARY

        Avigen, Inc. was incorporated in October 1992. Our principal executive
offices are located at 1201 Harbor Bay Parkway, Suite 1000, Alameda, California
94502, and our telephone number is (510) 748-7150. Our Web site is located on
the world wide web at "avigen.com." We do not incorporate by reference into this
prospectus the information on our Web site, and you should not consider it as
part of this prospectus.

                                  THE OFFERING

Shares offered ......................   We are offering all of the 694,441
                                        shares being offered hereby.

Shares outstanding after this           Following this offering, assuming all of
offering ............................   the shares offered by this prospectus
                                        supplement are sold, there will be
                                        19,416,866 shares of our common stock
                                        outstanding. This number is based upon
                                        the number of shares outstanding on
                                        September 30, 2000 plus the 1,658,329
                                        shares of our common stock previously
                                        sold under the shelf registration
                                        statement of which this prospectus
                                        supplement forms a part. This number
                                        does not include shares that may be
                                        issued pursuant to the exercise of stock
                                        options and warrants currently
                                        outstanding or which may be granted
                                        under our stock option plans, or upon
                                        the conversion of preferred stock
                                        outstanding.


Use of proceeds .....................   For general corporate purposes,
                                        including:

                                            -     to fund research and
                                                  development;

                                            -     to fund preclinical studies
                                                  and clinical trials of our
                                                  drug candidates;

                                            -     to fund completion of our
                                                  manufacturing facilities;

                                            -     for working capital; and

                                            -     for general corporate
                                                  purposes.



                                      S-3.
<PAGE>   4

                                  RISK FACTORS

        An investment in our common stock involves a high degree of risk. You
should not make such an investment if you cannot afford the loss of your entire
investment. In addition to the other information in this prospectus supplement
or prospectus, you should consider carefully the following factors in evaluating
Avigen and its business before purchasing any shares of our common stock.

WE EXPECT TO CONTINUE TO OPERATE AT     Since our inception in 1992, we have not
A LOSS, AND WE MAY NEVER ACHIEVE        been profitable, and we cannot be
PROFITABILITY .......................   certain that we will ever achieve and
                                        sustain profitability. To date, we have
                                        been engaged in research and development
                                        activities and have not generated any
                                        revenues from product sales. As of
                                        September 30, 2000, we had an
                                        accumulated deficit of $54.9 million.
                                        The process of developing our products
                                        will require significant research and
                                        development, preclinical testing and
                                        clinical trials, as well as regulatory
                                        approval. We expect these activities,
                                        together with our general and
                                        administrative expenses, to result in
                                        operating losses for the foreseeable
                                        future. Our ability to achieve
                                        profitability will depend, in part, on
                                        our ability to successfully complete
                                        development of our proposed products,
                                        obtain required regulatory approvals and
                                        manufacture and market our products
                                        directly or through partners.

THE RESULTS OF OUR CLINICAL TRIALS      Six patients have received intramuscular
FOR COAGULIN-B FOR THE TREATMENT OF     injections at low and medium doses
HEMOPHILIA B ARE BASED ON A SMALL       according to the approved protocol for
NUMBER OF PATIENTS OVER A SHORT         the phase I clinical trial of Coagulin-B
PERIOD OF TIME, AND THE SUCCESSES       with dose escalations. Through this
REPORTED MAY NOT BE INDICATIVE OF       point in the study, these patients have
RESULTS IN A LARGE NUMBER OF            demonstrated successful gene expression
PATIENTS OR HAVE LASTING EFFECTS ....   of factor IX in muscle tissue, and the
                                        treatments have been well tolerated.
                                        These results, however, are extremely
                                        preliminary and are based upon the
                                        evaluations of only a small group of
                                        patients. Actual results with more data
                                        points may show less favorable
                                        measurements. In addition, we do not yet
                                        know if these results will have a
                                        lasting effect. If a larger population
                                        of patients does not experience similar
                                        results, or these results do not have a
                                        lasting effect, this product candidate
                                        may not receive approval from the Food
                                        and Drug Administration, commonly
                                        referred to as the "FDA." In addition,
                                        any report of clinical trial results
                                        that are below the expectations of
                                        financial analysts or investors would
                                        most likely cause our stock price to
                                        drop dramatically.

THE SUCCESS OF OUR TECHNOLOGY IN        Even though our product candidates have
ANIMAL MODELS DOES NOT GUARANTEE        shown successful results in animal
THAT THESE RESULTS WILL BE              models, animals are different than
REPLICATED IN HUMANS ................   humans and these results may not be
                                        replicated in our clinical trials with
                                        humans. For example, the results of our
                                        gene therapy treatment for Hemophilia B
                                        in dogs were different from the results
                                        of our studies with mice. In addition,
                                        the results we have seen to date in
                                        humans in our clinical trials for
                                        Coagulin-B are different from the
                                        results of our studies with dogs.
                                        Consequently, you should not rely on the
                                        results in our animal models as being
                                        predictive of the results that we will
                                        see in our clinical trials with humans.

BECAUSE OUR PRODUCT CANDIDATES ARE      None of our product candidates have
IN AN EARLY STATE OF DEVELOPMENT,       received regulatory approval for
THERE IS A HIGH RISK THAT THEY MAY      commercial sale, and we face the risk
NEVER BE COMMERCIALIZED .............   that none of our product candidates will
                                        ever receive regulatory approval. All of
                                        our product candidates are in early
                                        stages of development. We have only one
                                        product candidate,



                                      S-4.
<PAGE>   5

                                        Coagulin-B for the treatment of
                                        Hemophilia B, in clinical trials, and
                                        this product candidate is only in phase
                                        I of a clinical trial with dose
                                        escalations. We are not aware of any
                                        gene therapy products that have received
                                        regulatory approval. None of our
                                        prospective products, including
                                        Coagulin-B for the treatment of
                                        Hemophilia B, is expected to be
                                        commercially available for at least
                                        several years. Based on results at any
                                        stage of clinical trials, we may decide
                                        to discontinue development of one or
                                        more of our potential products.

TECHNOLOGICAL CHANGE MAY MAKE OUR       Gene therapy is new and rapidly evolving
POTENTIAL PRODUCTS AND TECHNOLOGIES     and is expected to continue to undergo
LESS ATTRACTIVE OR OBSOLETE .........   significant and rapid technological
                                        change. Rapid technological development
                                        could result in our actual and proposed
                                        technologies, products or processes
                                        becoming less attractive or obsolete.

ADVERSE EVENTS IN THE FIELD OF GENE     In November 1999, the death of a patient
THERAPY MAY NEGATIVELY IMPACT           involved in an unrelated clinical trial
REGULATORY APPROVAL OR PUBLIC           that was undergoing a viral-based gene
PERCEPTION OF OUR POTENTIAL             therapy treatment was widely publicized.
PRODUCTS ............................   This death and other adverse events in
                                        the field of gene therapy that may occur
                                        in the future could result in greater
                                        governmental regulation of our potential
                                        products and potential regulatory delays
                                        relating to the testing or approval of
                                        our potential products. For example, as
                                        a result of this death, the Recombinant
                                        DNA Advisory Committee of the National
                                        Institutes of Health may become more
                                        active in reviewing the clinical trials
                                        or proposed clinical trials of all
                                        companies involved in gene therapy. It
                                        is uncertain what effect this increased
                                        scrutiny will have on our product
                                        development efforts or clinical trials.

                                        The commercial success of our potential
                                        products will depend in part on public
                                        acceptance of the use of gene therapy
                                        for the prevention or treatment of human
                                        diseases. Public attitudes may be
                                        influenced by claims that gene therapy
                                        is unsafe, and consequently our products
                                        may not gain the acceptance of the
                                        public or the medical community.
                                        Negative public reaction to gene therapy
                                        in general could result in greater
                                        government regulation and stricter
                                        labeling requirements of gene therapy
                                        products, including any of our products,
                                        and could cause a decrease in the demand
                                        for any products we may develop.

OUR POTENTIAL PRODUCTS MUST UNDERGO     The clinical trial process is complex,
RIGOROUS CLINICAL TESTING AND           uncertain and expensive. Positive
REGULATORY APPROVALS, WHICH COULD       results from preclinical studies and
SUBSTANTIALLY DELAY OR PREVENT US       early clinical trials do not ensure
FROM MARKETING ANY PRODUCTS .........   positive results in clinical trials
                                        designed to permit application for
                                        regulatory approval. Prior to marketing
                                        in the United States, any product
                                        developed by us must undergo rigorous
                                        preclinical testing and clinical trials
                                        as well as an extensive regulatory
                                        approval process implemented by the FDA.
                                        The FDA approval process is typically
                                        lengthy and expensive, and approval is
                                        never certain. Because of the risks and
                                        uncertainties in biopharmaceutical
                                        development, our gene therapy products
                                        could take a significantly longer time
                                        to gain regulatory approval than we
                                        expect or may never gain FDA approval.
                                        If we do not receive these necessary
                                        approvals from the FDA, we will not be
                                        able to generate substantial revenues
                                        and will not become profitable. We may
                                        encounter significant delays or
                                        excessive costs in our efforts to secure
                                        regulatory approvals.



                                      S-5.
<PAGE>   6

                                        Factors that raise uncertainty in
                                        obtaining these regulatory approvals
                                        include:

                                            -     gene therapy is a new and
                                                  rapidly evolving technology;

                                            -     to date, there has been only
                                                  limited research and
                                                  development in gene therapy
                                                  using AAV vectors, which we
                                                  believe will cause clinical
                                                  trials to proceed more slowly
                                                  than clinical trials involving
                                                  traditional drugs;

                                            -     we must obtain FDA approval to
                                                  begin clinical trials of our
                                                  potential products, which we
                                                  may not be able to obtain;

                                            -     we must demonstrate through
                                                  clinical trials that the
                                                  proposed product is safe and
                                                  effective for its intended
                                                  use;

                                            -     we are not aware of any gene
                                                  therapy products that have
                                                  obtained marketing approval
                                                  from the FDA;

                                            -     whether or not our product
                                                  candidates cause patients to
                                                  develop antibodies to these
                                                  potential products or the
                                                  proteins produced by these
                                                  potential products;

                                            -     the regulatory requirements
                                                  governing gene therapy
                                                  products are uncertain and are
                                                  subject to change;

                                            -     none of our proposed products
                                                  has been tested in humans for
                                                  their effectiveness; and

                                            -     data obtained from preclinical
                                                  and clinical activities are
                                                  susceptible to varying
                                                  interpretations which could
                                                  delay, limit or prevent
                                                  regulatory approvals.

                                        Failure to comply with applicable FDA or
                                        other regulatory requirements may result
                                        in criminal prosecution, civil penalties
                                        and other actions that would seriously
                                        impair our ability to conduct our
                                        business. Even if regulatory approval is
                                        granted for a product, this approval
                                        will be limited to those disease states
                                        and conditions for which the product is
                                        useful, as demonstrated through clinical
                                        trials.

WE HAVE LIMITED EXPERIENCE IN           Clinical trials must meet FDA regulatory
CONDUCTING CLINICAL TRIALS, WHICH       requirements. We have limited experience
MAY CAUSE DELAYS IN COMMENCING AND      in conducting the preclinical studies
COMPLETING CLINICAL TRIALS OF OUR       and clinical trials necessary to obtain
PRODUCTS ............................   FDA regulatory approval. Consequently,
                                        we may encounter problems in clinical
                                        trials which cause us or the FDA to
                                        delay, suspend or terminate these
                                        trials. Problems we may encounter
                                        include the chance that we may not be
                                        able to conduct clinical trials at
                                        preferred sites, obtain sufficient test
                                        subjects or begin or successfully
                                        complete clinical trials in a timely
                                        fashion, if at all. Furthermore, the FDA
                                        may suspend clinical trials at any time
                                        if it believes the subjects
                                        participating in trials are being
                                        exposed to unacceptable health risks or
                                        if it finds deficiencies in the clinical
                                        trial process or conduct of the
                                        investigation.



                                      S-6.
<PAGE>   7

WE MAY NOT BE SUCCESSFUL IN             We cannot be certain that we will obtain
OBTAINING REQUIRED FOREIGN              any regulatory approvals in other
REGULATORY APPROVALS, WHICH             countries. In order to market our
WOULD PREVENT US FROM MARKETING OUR     products outside of the United States,
PRODUCTS INTERNATIONALLY ............   we also must comply with numerous and
                                        varying foreign regulatory requirements
                                        implemented by foreign regulatory
                                        authorities. The approval procedure
                                        varies among countries and can involve
                                        additional testing. The time required to
                                        obtain approval may differ from that
                                        required to obtain FDA approval. The
                                        foreign regulatory approval process
                                        includes all of the risks associated
                                        with obtaining FDA approval set forth
                                        above, and approval by the FDA does not
                                        ensure approval by the health
                                        authorities of any other country.

WE HAVE LIMITED EXPERIENCE IN           Even if we are able to develop our
MANUFACTURING, AND NO EXPERIENCE IN     potential products and obtain necessary
MARKETING OR SELLING OUR POTENTIAL      regulatory approvals, we have limited
PRODUCTS, WHICH RAISES UNCERTAINTY IN   experience in manufacturing and no
OUR ABILITY TO COST-EFFECTIVELY         experience in marketing or selling, any
COMMERCIALIZE OUR POTENTIAL             of our proposed products on a commercial
PRODUCTS ............................   basis. Although we believe our recently
                                        completed construction of a second
                                        manufacturing facility will be capable
                                        of producing commercial-scale quantities
                                        of our proprietary adeno-associated
                                        virus vectors, if we are unable to
                                        manufacture our products in a
                                        cost-effective manner, we will not
                                        become profitable. While the facility is
                                        designed to meet the FDA's regulations
                                        concerning current good manufacturing
                                        practices we have not yet received final
                                        validation, and may fail to maintain
                                        adequate compliance with these
                                        requirements in the future. In addition,
                                        we do not anticipate establishing our
                                        own sales and marketing capabilities in
                                        the foreseeable future. We may not be
                                        able to develop adequate marketing
                                        capabilities either on our own or
                                        through third parties.

WE MAY BE REQUIRED TO OBTAIN RIGHTS     We currently investigate and use certain
TO PROPRIETARY GENES AND OTHER          gene sequences or proteins encoded by
TECHNOLOGIES TO FURTHER DEVELOP OUR     those sequences, including the factor
BUSINESS, WHICH MAY NOT BE              VIII gene, and manufacturing processes
AVAILABLE OR MAY BE COSTLY ..........   that are or may become patented by
                                        others. As a result, we may be required
                                        to obtain licenses to these gene
                                        sequences or proteins or other
                                        technology in order to test, use or
                                        market products. We may not be able to
                                        obtain these licenses on terms favorable
                                        to us. In connection with our efforts to
                                        obtain rights to these gene sequences or
                                        proteins or other technology, we may
                                        find it necessary to convey rights to
                                        our technology to others. Some of our
                                        gene therapy products may require the
                                        use of multiple proprietary
                                        technologies. Consequently, we may be
                                        required to make cumulative royalty
                                        payments to several third parties. These
                                        cumulative royalties could be
                                        commercially prohibitive. We may not be
                                        able to successfully negotiate these
                                        royalty adjustments.

IF WE DO NOT ACHIEVE CERTAIN            We have entered into license agreements
MILESTONES, WE MAY NOT BE ABLE TO       with third parties for technologies
RETAIN LICENSES TO OUR INTELLECTUAL     related to our gene therapy product
PROPERTY ............................   development programs. Some of these
                                        license agreements provide for the
                                        achievement of development milestones.
                                        If we fail to achieve these milestones
                                        or to obtain extensions, the licensor
                                        may terminate these license agreements
                                        with relatively short notice to us.
                                        Termination of any of our license
                                        agreements could harm our business.



                                      S-7.
<PAGE>   8


WE EXPECT THAT WE WILL FACE INTENSE     Our competitors may develop more
COMPETITION, WHICH MAY LIMIT OUR        effective or more affordable products,
ABILITY TO BECOME PROFITABLE ........   or commercialize products earlier than
                                        we do, which would limit the prices that
                                        we could charge for the products that we
                                        are able to market, and prevent us from
                                        becoming profitable. We expect increased
                                        competition from fully integrated
                                        pharmaceutical companies and more
                                        established biotechnology companies.
                                        Most of these companies have
                                        significantly greater financial
                                        resources and expertise than we do in
                                        the following:

                                           -      research and development;

                                           -      preclinical studies and
                                                  clinical trials;

                                           -      obtaining regulatory
                                                  approvals;

                                           -      manufacturing; and

                                           -      marketing and distribution.

                                        Smaller companies may also prove to be
                                        significant competitors, particularly
                                        through collaborative arrangements with
                                        large pharmaceutical companies. Academic
                                        institutions, government agencies and
                                        other public and private research
                                        organizations also conduct research,
                                        seek patent protection and establish
                                        collaborative arrangements for product
                                        development and marketing. In addition,
                                        these companies and institutions compete
                                        with us in recruiting and retaining
                                        highly qualified scientific and
                                        management personnel.

                                        We are aware that other companies are
                                        conducting preclinical studies and
                                        clinical trials for viral and non-viral
                                        gene therapy products. One of these
                                        companies is supporting clinical studies
                                        for use of AAV vectors in the treatment
                                        of cystic fibrosis.

OUR SUCCESS IS DEPENDENT UPON OUR       Our success will depend to a significant
ABILITY TO EFFECTIVELY PROTECT OUR      degree on our ability to obtain patents
PATENTS AND PROPRIETARY RIGHTS,         and licenses to patent rights, preserve
WHICH WE MAY NOT BE ABLE TO DO ......   trade secrets and to operate without
                                        infringing on the proprietary rights of
                                        others. If we are not successful in
                                        these endeavors, our business will be
                                        substantially impaired.

                                        To date, we have filed a number of
                                        patent applications in the United States
                                        relating to our technologies. In
                                        addition, we have acquired exclusive and
                                        non-exclusive licenses to certain issued
                                        patents and pending patent applications.
                                        We cannot be assured that patents will
                                        issue from these applications or that
                                        any patent will issue on technology
                                        arising from additional research or, if
                                        patents do issue, that claims allowed
                                        will be sufficient to protect our
                                        technologies.

                                        The patent application process takes
                                        several years and entails considerable
                                        expense. The failure to obtain patent
                                        protection on the technologies
                                        underlying our proposed products may
                                        have a material adverse effect on our
                                        competitive position and business
                                        prospects. Important legal issues remain
                                        to be resolved as to the scope of patent



                                      S-8.
<PAGE>   9

                                        protection for biotechnology products,
                                        and we expect that administrative
                                        proceedings, litigation or both may be
                                        necessary to determine the validity and
                                        scope of our and others' biotechnology
                                        patents. These proceedings or litigation
                                        may require a significant commitment of
                                        our resources in the future. If patents
                                        can be obtained, we cannot assure you
                                        that any of these patents will provide
                                        us with any competitive advantage. For
                                        example, others may independently
                                        develop similar technologies or
                                        duplicate any technology developed by
                                        us, and patents may be invalidated in
                                        litigation. In addition, several of our
                                        patents and patent applications are
                                        co-owned with co-inventors or
                                        institutions. Under the terms of the
                                        agreements with the co-inventors, we
                                        have obtained or have an option to
                                        obtain an exclusive, worldwide,
                                        transferable, royalty-bearing license
                                        for the technology. To date, we have
                                        negotiated exclusive licenses for two of
                                        the more significant co-invented
                                        technologies. If we cannot negotiate
                                        exclusive rights to other co-owned
                                        technology, each co-inventor may have
                                        rights to independently make, use, offer
                                        to sell or sell the patented technology.
                                        Commercialization, assignment or
                                        licensing of the technology by a
                                        co-inventor could harm our business.

                                        We also rely on a combination of trade
                                        secret and copyright laws, employee and
                                        third-party nondisclosure agreements and
                                        other protective measures to protect
                                        intellectual property rights pertaining
                                        to our products and technologies. We
                                        cannot be certain that these measures
                                        will provide meaningful protection of
                                        our trade secrets, know-how or other
                                        proprietary information in the event of
                                        any unauthorized use, misappropriation
                                        or disclosure of our trade secrets,
                                        know-how or other proprietary
                                        information. In addition, the laws of
                                        certain foreign countries do not protect
                                        our intellectual property rights to the
                                        same extent as do the laws of the United
                                        States. We cannot assure you that we
                                        will be able to protect our intellectual
                                        property successfully.

OTHER PERSONS MAY ASSERT RIGHTS IN      Third parties may assert patent or other
OUR PROPRIETARY TECHNOLOGY, WHICH       intellectual property infringement
WOULD BE COSTLY TO CONTEST OR SETTLE    claims against us with respect to our
 ....................................   products or technology or other matters.
                                        Any claims against us, with or without
                                        merit, as well as claims initiated by us
                                        against third parties, can be
                                        time-consuming and expensive to defend
                                        or prosecute and to resolve. There may
                                        be third-party patents and other
                                        intellectual property relevant to our
                                        products and technology which are not
                                        known to us. We have not been accused of
                                        infringing any third party's patent
                                        rights or other intellectual property,
                                        but we cannot assure you that litigation
                                        asserting claims will not be initiated,
                                        that we would prevail in any litigation,
                                        or that we would be able to obtain any
                                        necessary licenses on reasonable terms,
                                        if at all. If our competitors prepare
                                        and file patent applications in the
                                        United States that claim technology also
                                        claimed by us, we may have to
                                        participate in interference proceedings
                                        declared by the Patent and Trademark
                                        Office to determine priority of
                                        invention, which could result in
                                        substantial cost to us, even if the
                                        outcome is favorable to us. In addition,
                                        to the extent outside collaborators
                                        apply technological information
                                        developed independently by them or by
                                        others to our product development
                                        programs or apply our technologies to
                                        other projects, disputes may arise as to
                                        the ownership of



                                      S-9.
<PAGE>   10

                                        proprietary rights to these
                                        technologies.

IF OUR PRODUCTS ARE NOT ACCEPTED BY     Our success is dependent on acceptance
PHYSICIANS AND INSURERS, WE WILL        of our gene therapy products. We cannot
NOT BE SUCCESSFUL ...................   assure you that our products will
                                        achieve significant market acceptance
                                        among patients, physicians or
                                        third-party payors, even if we obtain
                                        necessary regulatory and reimbursement
                                        approvals. Failure to achieve
                                        significant market acceptance will harm
                                        our business. We believe that
                                        recommendations by physicians and health
                                        care payors will be essential for market
                                        acceptance of our gene therapy products.
                                        In the past, there has been concern
                                        regarding the potential safety and
                                        efficacy of gene therapy products
                                        derived from pathogenic viruses such as
                                        retroviruses and adenoviruses. While our
                                        proposed gene therapy products are
                                        derived from AAV, which is a
                                        non-pathogenic virus, we cannot be
                                        certain that physicians and health care
                                        payors will conclude that the technology
                                        is safe.

EVEN IF WE BRING OUR PRODUCTS TO        If we succeed in bringing our proposed
MARKET, WE MAY BE UNABLE TO             products to the market, we cannot assure
EFFECTIVELY PRICE OUR PRODUCTS OR       you that these products will be
OBTAIN ADEQUATE REIMBURSEMENT FOR       considered cost-effective and that
SALES OF OUR PRODUCTS, WHICH WOULD      reimbursement to the consumer will be
PREVENT OUR PRODUCTS FROM BECOMING      available or will be sufficient to allow
PROFITABLE ..........................   us to sell our products on a competitive
                                        basis. In both the United States and
                                        elsewhere, sales of medical products and
                                        treatments are dependent, in part, on
                                        the availability of reimbursement to the
                                        consumer from third-party payors, such
                                        as government and private insurance
                                        plans.

                                        Third-party payors are increasingly
                                        challenging the prices charged for
                                        medical products and services. Our
                                        business and financial condition is
                                        affected by the efforts of government
                                        and third-party payors to contain or
                                        reduce the cost of health care through
                                        various means. In the United States,
                                        there have been and will continue to be
                                        a number of federal and state proposals
                                        to implement government controls on
                                        pricing. In addition, the emphasis on
                                        managed care in the United States has
                                        increased and will continue to increase
                                        the pressure on the pricing of
                                        pharmaceutical products. We cannot
                                        predict whether any legislative or
                                        regulatory proposals will be adopted or
                                        the effect these proposals or managed
                                        care efforts may have on our business.

WE MAY BE UNABLE TO ATTRACT AND         We are highly dependent on certain
RETAIN THE QUALIFIED EMPLOYEES WE       members of our management and research
NEED TO BE SUCCESSFUL ...............   and development staff. The loss of any
                                        of these persons, or our inability to
                                        recruit additional personnel necessary
                                        to our business, could substantially
                                        impair our research and development
                                        efforts and impede our ability to
                                        develop and commercialize any of our
                                        products. Recruiting and retaining
                                        qualified technical and managerial
                                        personnel will also be critical to our
                                        success. Our business is located in the
                                        San Francisco Bay Area in California,
                                        where demand for personnel with these
                                        skills is extremely high and is likely
                                        to remain high. As a result, competition
                                        for and retention of personnel,
                                        particularly for employees with
                                        technical expertise, is intense and the
                                        turnover rate for these people is high.
                                        In addition, we rely on consultants and
                                        advisors to assist us in formulating our
                                        research and development strategy. A
                                        majority of our scientific advisors are
                                        engaged by us on a consulting basis and
                                        are employed on a



                                     S-10.
<PAGE>   11

                                        full-time basis by employers other than
                                        us and some have consulting or other
                                        advisory arrangements with other
                                        entities that may conflict or compete
                                        with their obligations to us.

WE MUST SECURE ADDITIONAL               We will require substantial additional
FINANCING, OTHERWISE WE WILL NOT BE     funding to complete the research and
ABLE TO DEVELOP OUR PRODUCTS.....       development activities currently
                                        contemplated and to commercialize our
                                        products. If we do not obtain these
                                        funds, we will not be able to develop
                                        our products. We anticipate that our
                                        existing capital resources as of
                                        September 30, 2000, will be adequate to
                                        fund our needs for at least two years.
                                        Our future capital requirements will
                                        depend on many factors, including:

                                           -      continued scientific progress
                                                  in research and development
                                                  programs;

                                           -      the scope and results of
                                                  preclinical studies and
                                                  clinical trials;

                                           -      the time and costs involved in
                                                  obtaining regulatory
                                                  approvals;

                                           -      the costs involved in filing,
                                                  prosecuting and enforcing
                                                  patent claims;

                                           -      competing technological
                                                  developments;

                                           -      the cost of manufacturing
                                                  scale-up;

                                           -      the cost of commercialization
                                                  activities; and

                                           -      other factors which may not be
                                                  within our control.

                                        We intend to seek additional funding
                                        through public or private equity or debt
                                        financing, when market conditions allow.
                                        If we raise additional funds by issuing
                                        equity securities, there may be further
                                        dilution to existing stockholders. We
                                        cannot assure you that we will be able
                                        to enter into financing arrangements on
                                        acceptable terms, if at all. Without
                                        additional funding, we may be required
                                        to delay, reduce the scope of or
                                        eliminate one or more of our research or
                                        development programs.



                                     S-11.
<PAGE>   12

WE FACE THE RISK OF PRODUCT             The manufacture and sale of medical
LIABILITY CLAIMS WHICH MAY EXCEED       products entail significant risk of
THE SCOPE OR AMOUNT OF OUR              product liability claims. We currently
INSURANCE COVERAGE ..................   carry product liability insurance;
                                        however, we cannot assure you that this
                                        coverage will remain in place or that
                                        this coverage will be adequate to
                                        protect us from all liabilities which we
                                        might incur in connection with the use
                                        or sale of our products. In addition, we
                                        may require increased product liability
                                        coverage as additional products are
                                        commercialized. This insurance is
                                        expensive and in the future may not be
                                        available on acceptable terms, if at
                                        all. A successful product liability
                                        claim or series of claims brought
                                        against us in excess of our insurance
                                        coverage could harm our business. We
                                        must indemnify certain of our licensors
                                        against any product liability claims
                                        brought against them arising out of
                                        products developed by us under these
                                        licenses.

OUR USE OF RADIOACTIVE AND OTHER        Because we use radioactive materials and
HAZARDOUS MATERIALS EXPOSES US TO       other hazardous substances in our
THE RISK OF MATERIAL ENVIRONMENTAL      research and development operations, we
LIABILITIES, AND WE MAY INCUR           are potentially subject to material
SUBSTANTIAL ADDITIONAL COSTS TO         liabilities related to personal injuries
COMPLY WITH ENVIRONMENTAL LAWS IN       or property damages that may be caused
THE EVENT THAT WE DEVELOP OUR OWN       by the spread of radioactive
MANUFACTURING FACILITY ..............   contamination or by other hazardous
                                        substance releases or exposures at, or
                                        from, our research facility.
                                        Decontamination costs associated with
                                        radioactivity releases, other clean-up
                                        costs, and related damages or
                                        liabilities could harm our business.

                                        We are required to comply with
                                        increasingly stringent laws and
                                        regulations governing environmental
                                        protection and workplace safety,
                                        including requirements governing the
                                        handling, storage and disposal of
                                        radioactive and other hazardous
                                        substances and wastes, and laboratory
                                        operating and safety procedures. These
                                        laws and regulations can impose
                                        substantial fines and criminal sanctions
                                        for violations. Maintaining in
                                        compliance with these laws and
                                        regulations with regard to the operation
                                        of our own commercial manufacturing
                                        facility could require substantial
                                        additional capital. These costs could
                                        decrease our ability to conduct
                                        manufacturing operations in a
                                        cost-effective manner.

ANTI-TAKEOVER EFFECTS OF CERTAIN        Certain provisions of our charter and
CHARTER PROVISIONS AND DELAWARE LAW     the Delaware Law may negatively affect
MAY NEGATIVELY AFFECT THE ABILITY       the ability of a potential buyer to
OF A POTENTIAL BUYER TO PURCHASE        attempt a takeover of Avigen, which may
SOME OR ALL OF OUR STOCK AT AN          have a negative effect on the price
OTHERWISE ADVANTAGEOUS PRICE, WHICH     investors are willing to pay for our
MAY LIMIT THE PRICE INVESTORS ARE       common stock. For example, our board of
WILLING TO PAY FOR OUR COMMON STOCK...  directors has the authority to issue up
                                        to 5,000,000 shares of preferred stock
                                        and to determine the price, rights,
                                        preferences and privileges of those
                                        shares without any further vote or
                                        action by the stockholders. The rights
                                        of the holders of common stock will be
                                        subject to, and may be materially
                                        adversely affected by, the rights of the
                                        holders of any preferred stock that may
                                        be issued in the future. The issuance of
                                        preferred stock could have the effect of
                                        making it more difficult for a third
                                        party to acquire a majority of the
                                        outstanding voting stock of Avigen. We
                                        have no present plans to issue shares of
                                        preferred stock. In addition, our board
                                        of directors is divided into three
                                        classes, and each year on a rotating
                                        basis the directors of one class are
                                        elected for a three-year term. This
                                        provision could have the effect of
                                        making it less likely that a third party
                                        would



                                     S-12.
<PAGE>   13

                                        attempt to obtain control of Avigen.
                                        Furthermore, certain other provisions of
                                        our restated certificate of
                                        incorporation may have the effect of
                                        delaying or preventing changes in
                                        control or management, which could
                                        adversely affect the market price of the
                                        our common stock. In addition, we are
                                        subject to the provisions of Section 203
                                        of the Delaware General Corporation Law,
                                        an anti-takeover law.

OUR STOCK PRICE IS VOLATILE, AND AS     We believe that various factors may
A RESULT, INVESTING IN OUR COMMON       cause the market price of our common
STOCK IS VERY RISKY................     stock to continue to fluctuate, perhaps
                                        substantially, including announcements
                                        of:

                                           -      technological innovations or
                                                  regulatory approvals;

                                           -      results of clinical trials;

                                           -      new products by us or our
                                                  competitors;

                                           -      developments or disputes
                                                  concerning patents or
                                                  proprietary rights;

                                           -      our failing to achieve certain
                                                  developmental milestones;

                                           -      public concern as to the
                                                  safety of gene therapy
                                                  products;

                                           -      health care or reimbursement
                                                  policy changes by governments
                                                  or insurance companies;

                                           -      developments in relationships
                                                  with corporate partners; or

                                           -      a change in financial
                                                  estimates or securities
                                                  analysts' recommendations

                                        In addition, in recent years the stock
                                        market in general, and the shares of
                                        biotechnology and health care companies
                                        in particular, have experienced extreme
                                        price fluctuations. These broad market
                                        and industry fluctuations may cause the
                                        market price of our common stock to
                                        decline dramatically.



                                     S-13.
<PAGE>   14

                 DISCLOSURE REGARDING FORWARD-LOOKING STATEMENTS

        The discussion in this prospectus supplement and in the prospectus
contains forward-looking statements that involve risks and uncertainties. Those
statements include words such as "anticipate," "estimate," "project," "intend,"
and similar expressions which we have used to identify these statements as
forward-looking statements. These statements appear throughout this prospectus
supplement and prospectus and are statements regarding our intent, belief, or
current expectations, primarily with respect to the operations of Avigen or
related industry developments. These forward-looking statements do not guarantee
future performance and involve risks and uncertainties, and that actual results
could differ materially from those discussed here, including under "Risk
Factors," and in the documents incorporated by reference in this prospectus
supplement and in the prospectus.

                                 DIVIDEND POLICY

        Avigen has not paid any cash dividends since its inception and does not
anticipate paying cash dividends in the foreseeable future.

                                 USE OF PROCEEDS

        We estimate that the net proceeds we will receive from the sale of the
694,441 shares of our common stock being offered by the prospectus supplement
will be approximately $29.9 million, after deducting the placement agent fees
and estimated offering expenses, assuming all of the shares offered by this
prospectus are sold. We expect to use the net proceeds of this offering as
follows:

        -       to fund research and development;

        -       to fund preclinical studies and clinical trials of our drug
                candidates;

        -       to fund completion of our manufacturing facilities;

        -       for working capital; and

        -       for general corporate purposes.

        We have not determined the amount of net proceeds to be used for each of
the specific purposes listed. Accordingly, we will have broad discretion to use
the proceeds as we see fit.

        Based upon the current status of our product development programs, we
believe that the net proceeds from this offering, together with interest on
those net proceeds and our existing capital resources, will satisfy our capital
requirements for at least the next three years.

        Pending these uses, we intend to invest the net proceeds of this
offering in short-term, interest-bearing, investment-grade instruments,
certificates of deposit or direct or guaranteed obligations of the United States
or its agencies.



                                     S-14.
<PAGE>   15

                           PRICE RANGE OF COMMON STOCK

        Since May 22, 1996, our common stock has been traded on the Nasdaq
National Market under the symbol "AVGN." A summary of the high and low sale
prices during the periods indicated for our common stock on the Nasdaq National
Market follows:

<TABLE>
<CAPTION>
FISCAL 1999                                                    HIGH         LOW
-----------                                                    ----         ---
<S>                                                          <C>         <C>
Quarter ended 9/30/98                                         $3.56       $1.50
Quarter ended 12/31/98                                        $7.81       $2.00
Quarter ended 3/31/99                                         $8.00       $4.63
Quarter ended 6/30/99                                         $6.63       $4.69

FISCAL 2000

Quarter ended 9/30/99                                        $13.25       $5.63
Quarter ended 12/31/99                                       $37.00      $12.25
Quarter ended 3/31/00                                        $89.00      $28.00
Quarter ended 6/30/00                                        $46.75      $25.00

FISCAL 2001

Quarter ending 9/30/00                                       $47.87      $29.63
Quarter ending 12/31/00 (through November 13, 2000)          $49.75      $34.50
</TABLE>

        On November 13, 2000, the last sale price of our common stock reported
by the Nasdaq National Market was $45 3/16 per share. As of November 1, 2000,
there were 193 stockholders of record of our common stock.

                                    DILUTION

        Our net tangible book value as of September 30, 2000, after giving
effect to the sale on November 1, 2000 of 1,658,329 shares of our common stock
at $37.50 per share under the shelf registration statement of which this
prospectus supplement forms a part, after deducting the placement agent fees and
estimated offering expenses, was approximately $135.5 million, or $7.24 per
share. Net tangible book value per share represents the amount of our total
tangible assets less total liabilities divided by the total number of shares of
common stock outstanding. After giving effect to the sale by us of 694,441
shares of common stock offered by us by this prospectus supplement at the
offering price of $45 3/16 per share and after deducting the placement agent
fees and estimated offering expenses, our net tangible book value at September
30, 2000, after giving effect to the sale of the 1,658,329 shares of our common
stock referred to above, would have been approximately $165.4 million, or $8.52
per share. This represents an immediate increase in net tangible book value of
$1.28 per share to existing stockholders and an immediate dilution of $36.54 per
share to new investors in the offering by this prospectus supplement, as
illustrated by the following table:

<TABLE>
<S>                                                                    <C>     <C>
Assumed public offering price per share .........................              $45.06
  Net tangible book value per share before this offering ........      $7.24
  Increase per share attributable to this offering ..............      1.28
                                                                      ------
Net tangible book value per share after this offering ...........                8.52
                                                                               ------
Dilution per share to new investors .............................              $36.54
                                                                               ======
</TABLE>


        In addition, the above computations assume no exercise of options to
purchase 2,420,634 shares of common stock outstanding at September 30, 2000 at a
weighted average exercise price of $16.69 per



                                     S-15.
<PAGE>   16

share and no exercise of warrants to purchase 1,598,730 shares of common stock
at a weighted average exercise price of $13.77 per share outstanding on this
date. To the extent these options and warrants are exercised, there will be
further dilution to investors.

                              PLAN OF DISTRIBUTION

        We are offering the 694,441 shares directly to selected investors. Of
these shares, 177,531 shares are being offered through Granite Financial Group
acting as placement agent for us on a best efforts basis.

        In connection with this sale, we have agreed to pay Granite Financial
Group a placement agent fee of 3% of the gross proceeds to us from the sales of
the 177,531 shares placed by them, prior to the deduction of any expenses
payable by us. The following table shows the placement agent fees to be paid by
us to Granite Financial Group in connection with the sale of the shares of our
common stock being sold pursuant to this prospectus supplement, assuming all of
these shares are sold:

<TABLE>
        <S>                                        <C>
        Placement Agent Fee Per Share .......      $      1.35
        Total ...............................      $   240,000
</TABLE>

        In connection with this offering, BioFinance et Developpement SAS and
Privateq Advisors have acted as finders for us, introducing us to prospective
investors in the shares. BioFinance et Developpement SAS and Privateq Advisors
are not obligated to, and do not intend to, take or purchase any of the shares
being offered by this prospectus supplement and related prospectus, nor are
BioFinance et Developpement SAS and Privateq Advisors participating in this
offering as placement agents or otherwise. We have agreed to pay BioFinance et
Developpement SAS and Privateq Advisors each a finders fee of 5% of the gross
proceeds from the sale of shares to investors introduced to us by BioFinance et
Developpement SAS and Privateq Advisors, respectively, prior to the deduction of
any expenses payable by us. Assuming all of the shares offered hereby are sold,
we expect these amounts to be $500,892 payable to BioFinance et Developpement
SAS and $214,047 to Privateq Advisors.



                                     S-16.
<PAGE>   17

        In addition, CIBC World Markets Corp. has acted as a finder for us,
introducing us to prospective investors in the shares. CIBC World Markets Corp.
is not obligated to, and does not intend to, take or purchase any of the shares
being offered by this prospectus supplement and related prospectus, nor is CIBC
World Markets Corp. participating in this offering as a placement agent or
otherwise. We have agreed to pay CIBC World Markets Corp. a finders fee of 4.75%
of the gross proceeds from the sale of shares to investors introduced to us by
CIBC World Markets Corp., prior to the deduction of any expenses payable by us.
Assuming all of the shares offered hereby are sold, we expect this amount to be
$427,238. CIBC World Markets Corp. previously acted as one of our managing
underwriters in connection with our underwritten public offering that occurred
in April 2000.

        We estimate that the total expenses of the offering, including all
offerings under the prospectus but excluding placement agent fees and finders
fees, including those specified above, will be approximately $100,000.
Proportionally, the amount of these expenses relates to approximately $26,000
for the shares offered by this prospectus supplement.



                                  LEGAL MATTERS

        The validity of the 694,441 shares offered by this prospectus supplement
has been passed upon for Avigen by Cooley Godward LLP, Palo Alto, California.



                                     S-17.


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