<PAGE>

                                                                   Exhibit 10.10

                             GENOMICA CORPORATION

                           SERIES C PREFERRED STOCK

                              PURCHASE AGREEMENT

                                March 13, 2000

<PAGE>

                               Table of Contents

<TABLE>
<CAPTION>
                                                                            Page
<S>                                                                         <C>
Section 1.  AGREEMENT TO SELL AND PURCHASE.............................

     1.1     Authorization of Shares...................................

     1.2     Sale and Purchase.........................................

Section 2.  CLOSING, DELIVERY AND PAYMENT..............................

     2.1     Closing...................................................

     2.2     Delivery..................................................

Section 3.  REPRESENTATIONS AND WARRANTIES OF THE COMPANY..............

     3.1     Organization, Good Standing and Qualification.............

     3.2     Subsidiaries..............................................

     3.3     Capitalization; Voting Rights.............................

     3.4     Authorization; Binding Obligations........................

     3.5     Financial Statements......................................

     3.6     Liabilities...............................................

     3.7     Agreements; Action........................................

     3.8     Obligations to Related Parties............................

     3.9     Absence of Changes........................................

     3.10    Title to Properties and Assets; Liens, Etc................

     3.11    Patents and Trademarks....................................

     3.12    Compliance with Other Instruments.........................

     3.13    Litigation................................................

     3.14    Tax Returns and Payments..................................

     3.15    Employees.................................................

     3.16    Proprietary Information and Inventions Agreements.........

     3.17    Obligations of Management.................................

     3.18    Registration Rights.......................................

     3.19    Compliance with Laws; Permits.............................

     3.20    Offering Valid............................................

     3.21    Full Disclosure...........................................

Section 4.  REPRESENTATIONS AND WARRANTIES OF THE PURCHASERS...........

     4.1     Requisite Power and Authority.............................
</TABLE>

                                      i.
<PAGE>

                               Table of Contents
                                  (continued)

<TABLE>
<CAPTION>
                                                                            Page
<S>                                                                         <C>
     4.2     Investment Representations................................

     4.3     Transfer Restrictions.....................................

Section 5.  CONDITIONS TO CLOSING......................................

     5.1     Conditions to Purchasers' Obligations at the Closing......

     5.2     Conditions to Obligations of the Company..................

Section 6.  MISCELLANEOUS..............................................

     6.1     Governing Law.............................................

     6.2     Survival..................................................

     6.3     Successors and Assigns....................................

     6.4     Entire Agreement..........................................

     6.5     Severability..............................................

     6.6     Amendment and Waiver......................................

     6.7     Delays or Omissions.......................................

     6.8     Notices...................................................

     6.9     Titles and Subtitles......................................

     6.10    Counterparts..............................................

     6.11    Broker's Fees.............................................

     6.12    Expenses..................................................

     6.13    Attorneys' Fees...........................................

     6.14    Exculpation Among Purchasers..............................
</TABLE>

                                      ii.
<PAGE>

                               Index of Exhibits



Schedule of Purchasers                    Exhibit A

Restated Certificate of Incorporation     Exhibit B

Amended and Restated Investors'
Rights Agreement                          Exhibit C
<PAGE>

                             GENOMICA CORPORATION

                  SERIES C PREFERRED STOCK PURCHASE AGREEMENT

     This Series C Preferred Stock Purchase Agreement (the "Agreement") is
entered into as of this ___ day of March, 2000, by and among Genomica
Corporation, a Delaware corporation (the "Company"), and each of those persons
and entities, severally and not jointly, whose names are set forth on the
Schedule of Purchasers attached hereto as Exhibit A (which persons and entities
                                          ---------
are hereinafter collectively referred to as "Purchasers" and each individually
as a "Purchaser").

                                    RECITALS

     Whereas, the Company has authorized the sale and issuance of up to an
aggregate of ten million two-hundred fifty thousand (10,250,000) shares of its
Series C Preferred Stock (the "Shares");

     Whereas, Purchasers desire to purchase the Shares on the terms and
conditions set forth herein; and

     Whereas, the Company desires to issue and sell the Shares to Purchasers on
the terms and conditions set forth herein.

     Now, Therefore, in consideration of the foregoing recitals and the mutual
promises hereinafter set forth, the parties hereto agree as follows:

SECTION 1.  AGREEMENT TO SELL AND PURCHASE

     1.1  Authorization of Shares.  On or prior to the Closing (as defined in
Section 2 below), the Company shall have authorized (i) the sale and issuance to
Purchasers of the Shares and (ii) the issuance of such shares of Common Stock to
be issued upon conversion of the Shares (the "Conversion Shares"). The Shares
and the Conversion Shares shall have the rights, preferences, privileges and
restrictions set forth in the Restated Certificate of Incorporation of the
Company, in the form attached hereto as Exhibit B (the "Certificate").
                                        ---------

     1.2  Sale and Purchase.  Subject to the terms and conditions hereof, at the
Closing (as hereinafter defined), the Company hereby agrees to issue and sell to
each Purchaser, severally and not jointly, and each Purchaser agrees to purchase
from the Company, severally and not jointly, the number of Shares set forth
opposite such Purchaser's name on Exhibit A at a purchase price of $1.50 per
                                  ---------
share.

                                       1.
<PAGE>

SECTION 2.  CLOSING, DELIVERY AND PAYMENT

     2.1  Closing.  The closing of the sale and purchase of the Shares under
this Agreement (the "Closing") shall take place on the date hereof, at the
offices of Cooley Godward llp, 2595 Canyon Boulevard, Suite 250, Boulder,
Colorado 80302, or at such other time or place as the Company and Purchasers may
mutually agree (such date is hereinafter referred to as a "Closing Date").

     2.2  Delivery.  At the Closing, subject to the terms and conditions hereof,
the Company will deliver to the Purchasers certificates representing the number
of Shares to be purchased at the Closing by each Purchaser, against payment of
the purchase price therefor, by check or wire transfer made payable to the order
of the Company or cancellation of indebtedness.

SECTION 3.  REPRESENTATIONS AND WARRANTIES OF THE COMPANY

     Except as set forth on the Schedule of Exceptions delivered to the
Purchasers, the Company hereby represents and warrants to each Purchaser as
follows:

     3.1  Organization, Good Standing and Qualification.  The Company is a
corporation duly organized, validly existing and in good standing under the laws
of the State of Delaware. The Company has all requisite corporate power and
authority to own and operate its properties and assets, to execute and deliver
this Agreement and the Amended and Restated Investors' Rights Agreement, in the
form attached hereto as Exhibit C (the "Investors' Rights Agreement"), to issue
                        ---------
and sell the Shares and the Conversion Shares and to carry out the provisions of
this Agreement, the Investors' Rights Agreement and the Certificate and to carry
on its business as presently conducted and as presently proposed to be
conducted. The Company is duly qualified and is authorized to do business and is
in good standing as a foreign corporation in all jurisdictions in which the
nature of its activities and of its properties (both owned and leased) make such
qualifications necessary, except for those jurisdictions in which failure to do
so would not have a material adverse effect on the Company or its business. The
Company has made available to the Purchasers true, correct and complete copies
of the Company's Certificate of Incorporation and Bylaws, each as amended to
date.

     3.2  Subsidiaries.  The Company owns no equity securities of any other
corporation, limited partnership or similar entity. The Company is not a
participant in any joint venture, partnership or similar arrangement.

     3.3  Capitalization; Voting Rights.  The authorized capital stock of the
Company, immediately prior to the Closing, will consist of (a) sixty-five
million (65,000,000) shares of Common Stock, of which five million five hundred
seven thousand four hundred fifty-seven (5,507,457) shares are issued and
outstanding, and (b) forty-seven million nine hundred thirty-eight thousand one
hundred seventy-eight (47,938,178) shares of Preferred Stock, of which twelve
million six hundred eighty-eight thousand one hundred seventy-eight (12,688,178)
shares are designated Series A Preferred Stock, of which twelve million five
hundred thirty-three thousand six hundred seventy-six (12,533,676) are issued
and outstanding, of which twenty-five million (25,000,000) shares are designated
Series B Preferred Stock, eighteen million eight

                                       2.
<PAGE>

hundred twenty-six thousand nine hundred fifty-nine (18,826,959) of which are
issued and outstanding and of which ten million two-hundred fifty thousand
(10,250,000) shares are designated Series C Preferred Stock, none of which are
issued and outstanding. All issued and outstanding shares of the Company's
Common Stock and Preferred Stock (i) have been duly authorized and validly
issued, (ii) are fully paid and nonassessable and (iii) were issued in
compliance with all applicable state and federal laws concerning the issuance of
securities. The rights, preferences, privileges and restrictions of the Shares
are as stated in the Certificate. The Conversion Shares have been duly and
validly reserved for issuance. Except as may be granted pursuant to this
Agreement, there are no outstanding options, warrants, rights (including
conversion or preemptive rights and rights of first refusal), proxy or
stockholder agreements, or agreements of any kind for the purchase or
acquisition from the Company of any of its securities. The Shares and the
Conversion Shares have been duly authorized and, when issued in compliance with
the provisions of this Agreement and the Certificate, will be validly issued
(including, without limitation, issued in compliance with applicable state and
federal securities laws), fully paid and nonassessable and will be free of any
liens or encumbrances; provided, however, that the Shares and the Conversion
Shares may be subject to restrictions on transfer under state and/or federal
securities laws as set forth herein or as otherwise required by such laws at the
time transfer is proposed.

     3.4  Authorization; Binding Obligations. All corporate action on the part
of the Company, its officers, directors and stockholders necessary for the
authorization of this Agreement and the Investors' Rights Agreement, the
performance of all obligations of the Company hereunder and thereunder at the
Closing and the authorization, sale, issuance and delivery of the Shares
pursuant hereto and the Conversion Shares pursuant to the Certificate has been
taken or will be taken prior to the Closing. The Agreement and the Investors'
Rights Agreement, when executed and delivered, will be valid and binding
obligations of the Company enforceable in accordance with their terms, except
(i) as limited by applicable bankruptcy, insolvency, reorganization, moratorium
or other laws of general application affecting enforcement of creditors' rights;
(ii) general principles of equity that restrict the availability of equitable
remedies; and (iii) to the extent that the enforceability of the indemnification
provisions in Section 3.11 of the Investors' Rights Agreement may be limited by
applicable laws. The sale of the Shares and the subsequent conversion of the
Shares into Conversion Shares are not and will not be subject to any preemptive
rights or rights of first refusal that have not been properly waived or complied
with.

     3.5  Financial Statements. The Company has delivered to each Purchaser its
unaudited balance sheet as at December 31, 1999 (the "Statement Date"), its
unaudited statement of operations, its unaudited statement of stockholders'
equity and its unaudited statement of cash flows for the twelve months ending
December 31, 1999 (collectively, the "Financial Statements"). The Financial
Statements are subject to normal recurring year-end audit adjustments, and do
not contain all footnotes required under generally accepted accounting
principles.

     3.6  Liabilities.  The Company has no material liabilities and, to the best
of its knowledge, has no material contingent liabilities not otherwise disclosed
in the Financial Statements, except current liabilities incurred in the ordinary
course of business subsequent to

                                       3.
<PAGE>

the Statement Date which have not been, either in any individual case or in the
aggregate, materially adverse.

     3.7  Agreements; Action.

          (a)  Except for agreements explicitly contemplated hereby and
agreements between the Company and its employees with respect to the sale of the
Company's Common Stock, there are no agreements, understandings or proposed
transactions between the Company and any of its officers, directors, affiliates
or any affiliate thereof.

          (b)  There are no agreements, understandings, instruments, contracts,
proposed transactions, judgments, orders, writs or decrees to which the Company
is a party or to its knowledge by which it is bound which may involve (i)
obligations (contingent or otherwise) of, or payments to, the Company in excess
of $25,000, or (ii) the license of any patent, copyright, trade secret or other
proprietary right to or from the Company (other than licenses arising from the
purchase of "off the shelf" or other standard products), or (iii) provisions
restricting or affecting the development, manufacture or distribution of the
Company's products or services, or (iv) indemnification by the Company with
respect to infringements of proprietary rights.

          (c)  The Company has not (i) declared or paid any dividends, or
authorized or made any distribution upon or with respect to any class or series
of its capital stock, (ii) incurred any indebtedness for money borrowed or any
other liabilities (other than with respect to dividend obligations,
distributions, indebtedness and other obligations incurred in the ordinary
course of business or as disclosed in the Financial Statements) individually in
excess of $25,000 or, in the case of indebtedness and/or liabilities
individually less than $25,000, in excess of $75,000 in the aggregate, (iii)
made any loans or advances to any person, other than ordinary advances for
travel expenses or (iv) sold, exchanged or otherwise disposed of any of its
assets or rights, other than the sale of its inventory in the ordinary course of
business.

          (d)  For the purposes of subsections (b) and (c) above, all
indebtedness, liabilities, agreements, understandings, instruments, contracts
and proposed transactions involving the same person or entity (including persons
or entities the Company has reason to believe are affiliated therewith) shall be
aggregated for the purpose of meeting the individual minimum dollar amounts of
such subsections.

     3.8  Obligations to Related Parties.  There are no obligations of the
Company to officers, directors, stockholders, or employees of the Company other
than (a) for payment of salary for services rendered, (b) reimbursement for
reasonable expenses incurred on behalf of the Company and (c) for other standard
employee benefits made generally available to all employees (including stock
option agreements outstanding under any stock option plan approved by the Board
of Directors of the Company). No such officer, director or stockholder, or any
member of their immediate families is, directly or indirectly, interested in any
material contract with the Company (other than such contracts as relate to any
such person's ownership of capital stock or other securities of the Company).
The Company is not a guarantor or indemnitor of any indebtedness of any other
person, firm or corporation.

                                       4.
<PAGE>

     3.9  Absence of Changes. Except as set forth in Schedule 3.9, since the
Statement Date, there has not been to the Company's knowledge:

          (a)  Any change in the assets, liabilities, financial condition or
operations of the Company from that reflected in the Financial Statements, other
than changes in the ordinary course of business, none of which individually or
in the aggregate has had or is expected to have a material adverse effect on
such assets, liabilities, financial condition or operations of the Company;

          (b)  Any resignation or termination of any key officers of the
Company; and the Company, to the best of its knowledge, does not know of the
impending resignation or termination of employment of any such officer;

          (c)  Any material change, except in the ordinary course of business,
in the contingent obligations of the Company by way of guaranty, endorsement,
indemnity, warranty or otherwise;

          (d)  Any damage, destruction or loss, whether or not covered by
insurance, materially and adversely affecting the properties, business or
prospects or financial condition of the Company;

          (e)  Any waiver by the Company of a valuable right or of a material
debt owed to it;

          (f)  Any direct or indirect loans made by the Company to any
stockholder, employee, officer or director of the Company, other than advances
made in the ordinary course of business;

          (g)  Any material change in any compensation arrangement or agreement
with any employee, officer, director or stockholder;

          (h)  Any declaration or payment of any dividend or other distribution
of the assets of the Company or any direct or indirect redemptions of shares of
the Company's stock;

          (i)  Any labor organization activity;

          (j)  Any debt, obligation or liability incurred, assumed or guaranteed
by the Company, except those for immaterial amounts and for current liabilities
incurred in the ordinary course of business;

          (k)  Any sale, assignment or transfer of any patents, trademarks,
copyrights, trade secrets or other intangible assets or any sale, transfer lease
or pledge of a material asset, except in the ordinary course of business;

          (l)  Any change in any material agreement to which the Company is a
party or by which it is bound which materially and adversely affects the
business, assets, liabilities, financial condition, operations or prospects of
the Company; or

                                       5.
<PAGE>

          (m)  Any other event or condition of any character that, either
individually or cumulatively, has materially and adversely affected the
business, assets, liabilities, financial condition, operations or prospects of
the Company. For purposes of this subsection (m), a material and adverse effect
shall only be deemed to occur if its monetary impact exceeds, or with the
passage of time, will exceed $75,000.

     3.10 Title to Properties and Assets; Liens, Etc.  The Company has good and
marketable title to its properties and assets, and good title to its leasehold
estates, in each case subject to no mortgage, pledge, lien, lease, encumbrance
or charge, other than (i) those resulting from taxes which have not yet become
delinquent, (ii) minor liens and encumbrances which do not materially detract
from the value of the property subject thereto or materially impair the
operations of the Company and (iii) those that have otherwise arisen in the
ordinary course of business.  All facilities, machinery, equipment, fixtures,
vehicles and other properties owned, leased or used by the Company are in good
operating condition and repair and are reasonably fit and usable for the
purposes for which they are being used.  The Company is in compliance with all
material terms of each lease to which it is a party or is otherwise bound.

     3.11 Patents and Trademarks.  To its knowledge, the Company owns or
possesses sufficient legal rights to all patents, trademarks, service marks,
trade names, copyrights, trade secrets, information and other proprietary rights
and processes necessary for its business as now conducted and as proposed to be
conducted, without any known infringement of the rights of others. There are no
outstanding options, licenses or agreements of any kind relating to the
foregoing, nor is the Company bound by or a party to any options, licenses or
agreements of any kind with respect to the patents, trademarks, service marks,
trade names, copyrights, trade secrets, licenses, information and other
proprietary rights and processes of any other person or entity other than such
licenses or agreements arising from the purchase of "off the shelf" or standard
products. The Company has not received any communications alleging that the
Company has violated or, by conducting its business as proposed, would violate
any of the patents, trademarks, service marks, trade names, copyrights or trade
secrets or other proprietary rights of any other person or entity. The Company
is not aware that any of its employees is obligated under any contract
(including licenses, covenants or commitments or any nature) or other agreement,
or subject to any judgment, decree or order of any court or administrative
agency, that would interfere with their duties to the Company's business by the
employees of the Company. The conduct of the Company's business as proposed,
will not, to the Company's knowledge, conflict with or result in a breach of the
terms, conditions or provisions of, or constitute a default under, any contract,
covenant or instrument under which any employee is now obligated. The Company
does not believe it is or will be necessary to utilize any inventions, trade
secrets or proprietary information of any of its employees made prior to their
employment by the Company, except for inventions, trade secrets or proprietary
information that have been assigned to the Company.

     3.12  Compliance with Other Instruments.  The Company is not in violation
or default of any term of its Certificate or Bylaws, or of any provision of any
mortgage, indenture, contract, agreement, instrument or contract to which it is
party or by which it is bound or of any judgment, decree, order, writ or, to its
knowledge, any statute, rule or regulation applicable to the Company which would
materially and adversely affect the business, assets, liabilities, financial

                                       6.
<PAGE>

condition, operations or prospects of the Company. The execution, delivery, and
performance of and compliance with this Agreement and the Investors' Rights
Agreement, and the issuance and sale of the Shares pursuant hereto and of the
Conversion Shares pursuant to the Certificate, will not, with or without the
passage of time or giving of notice, result in any such material violation, or
be in conflict with or constitute a default under any such term, or result in
the creation of any mortgage, pledge, lien, encumbrance or charge upon any of
the properties or assets of the Company or the suspension, revocation,
impairment, forfeiture or non-renewal of any permit, license, authorization or
approval applicable to the Company, its business or operations or any of its
assets or properties.

     3.13 Litigation.  There is no action, suit, proceeding or investigation
pending, or to the Company's knowledge, currently threatened against the Company
that questions the validity of this Agreement or the Investors' Rights Agreement
or the right of the Company to enter into any of such agreements, or to
consummate the transactions contemplated hereby or thereby, or which might
result, either individually or in the aggregate, in any material adverse change
in the assets, condition, affairs or prospects of the Company, financially or
otherwise, or any change in the current equity ownership of the Company, nor is
the Company aware that there is any basis for the foregoing. The foregoing
includes, without limitation, actions pending or threatened (or any basis
therefor known to the Company) involving the prior employment of any of the
Company's employees, their use in connection with the Company's business of any
information or techniques allegedly proprietary to any of their former
employers, or their obligations under any agreements with prior employers. The
Company is not a party or subject to the provisions of any order, writ,
injunction, judgment or decree of any court or government agency or
instrumentality. There is no action, suit, proceeding or investigation by the
Company currently pending or which the Company intends to initiate.

     3.14 Tax Returns and Payments.  The Company has timely filed all tax
returns (federal, state and local) required to be filed by it.  All taxes shown
to be due and payable on such returns, any assessments imposed, and to the
Company's knowledge all other taxes due and payable by the Company on or before
the Closing have been paid or will be paid prior to the time they become
delinquent.  The Company has not been advised (i) that any of its returns,
federal, state or other, have been or are being audited as of the date hereof,
or (ii) of any deficiency in assessment or proposed judgment to its federal,
state or other taxes.  The Company has no knowledge of any liability of any tax
to be imposed upon its properties or assets as of the date of this Agreement
that is not adequately provided for.

     3.15 Employees.  The Company is not a party to or bound by any currently
effective employment contract, deferred compensation arrangement, bonus plan,
incentive plan, profit sharing plan, retirement agreement or other employee
compensation plan or agreement. To the Company's knowledge, no employee of the
Company, nor any consultant with whom the Company has contracted, is in
violation of any term of any employment contract, proprietary information
agreement or any other agreement relating to the right of any such individual to
be employed by, or to contract with, the Company because of the nature of the
business to be conducted by the Company; and to the Company's knowledge the
continued employment by the Company of its present employees, and the
performance of the Company's contracts with its independent contractors, will
not result in any such violation. The Company has not received

                                       7.
<PAGE>

any notice alleging that any such violation has occurred. No employee of the
Company has been granted the right to continued employment by the Company or to
any material compensation following termination of employment with the Company.
The Company is not aware that any officer or key employee, or that any group of
key employees, intends to terminate, his, her or their employment with the
Company, nor does the Company have a present intention to terminate the
employment of any officer, key employee or group of key employees.

     3.16  Proprietary Information and Inventions Agreements.  Each current
employee, officer and consultant of the Company has executed a Proprietary
Information and Inventions Agreement in a form acceptable to the Purchasers. No
current employee, officer or consultant of the Company has excluded works or
inventions made prior to his or her employment with the Company from his or her
assignment of inventions pursuant to such employee, officer or consultant's
Proprietary Information and Inventions Agreement.

     3.17  Obligations of Management.  Each officer of the Company is currently
devoting one hundred percent (100%) of his business time to the conduct of the
business of the Company. The Company is not aware of any officer or key employee
of the Company who plans to work less than full time at the Company in the
future.

     3.18  Registration Rights.  Except as required pursuant to the Investors'
Rights Agreement, the Company is presently not under any obligation, and has not
granted any rights, to register (as defined in Section 1 of the Investors'
Rights Agreement) any of the Company's presently outstanding securities or any
of its securities that may hereafter be issued.

     3.19  Compliance with Laws; Permits.  The Company is not in violation of
any applicable statute, rule, regulation, order or restriction of any domestic
or foreign government or any instrumentality or agency thereof in respect of the
conduct of its business or the ownership of its properties which violation would
materially and adversely affect the business, assets, liabilities, financial
condition, operations or prospects of the Company. No governmental orders,
permissions, consents, approvals or authorizations are required to be obtained
and no registrations or declarations are required to be filed in connection with
the execution and delivery of this Agreement and the issuance of the Shares or
the Conversion Shares, except such as has been duly and validly obtained or
filed, or with respect to any filings that must be made after the Closing, as
will be filed in a timely manner. The Company has all franchises, permits,
licenses and any similar authority necessary for the conduct of its business as
now being conducted by it, the lack of which could materially and adversely
affect the business, properties, prospects or financial condition of the Company
and believes it can obtain, without undue burden or expense, any similar
authority for the conduct of its business as planned to be conducted.

     3.20  Offering Valid.  Assuming the accuracy of the representations and
warranties of the Purchasers contained in Section 4.2 hereof, the offer, sale
and issuance of the Shares and the Conversion Shares will be exempt from the
registration requirements of the Securities Act of 1933, as amended (the
"Securities Act"), and will have been registered or qualified (or are exempt
from registration and qualification) under the registration, permit or
qualification requirements of all applicable state securities laws. Neither the
Company nor any agent on its behalf has solicited or will solicit any offers to
sell or has offered to sell or will offer to sell all or

                                       8.
<PAGE>

any part of the Shares to any person or persons so as to bring the sale of such
Shares by the Company within the registration provisions of the Securities Act
or any state securities laws.

     3.21 Full Disclosure.  This Agreement, the Exhibits hereto, the Investors'
Rights Agreement and all other documents delivered by the Company to Purchasers
or their attorneys or agents in connection herewith or therewith or with the
transactions contemplated hereby or thereby, do not contain any untrue statement
of a material fact nor, to the Company's knowledge, omit to state a material
fact necessary in order to make the statements contained herein or therein not
misleading.

SECTION 4. REPRESENTATIONS AND WARRANTIES OF THE PURCHASERS

     Each Purchaser hereby represents and warrants to the Company as follows
(such representations and warranties do not lessen or obviate the
representations and warranties of the Company set forth in this Agreement):

     4.1  Requisite Power and Authority.  Purchaser has all necessary power and
authority under all applicable provisions of law to execute and deliver this
Agreement and the Investors' Rights Agreement and to carry out their provisions.
All action on Purchaser's part required for the lawful execution and delivery of
this Agreement and the Investors' Rights Agreement have been or will be
effectively taken prior to the Closing.  Upon their execution and delivery, this
Agreement and the Investors' Rights Agreement will be valid and binding
obligations of Purchaser, enforceable in accordance with their terms, except (i)
as limited by applicable bankruptcy, insolvency, reorganization, moratorium or
other laws of general application affecting enforcement of creditors' rights,
(ii) general principles of equity that restrict the availability of equitable
remedies and (iii) to the extent that the enforceability of the indemnification
provisions of the Investors' Rights Agreement may be limited by applicable laws.

     4.2  Investment Representations.  Purchaser understands that neither the
Shares nor the Conversion Shares have been registered under the Securities Act.
Purchaser also understands that the Shares are being offered and sold pursuant
to an exemption from registration contained in the Securities Act based in part
upon Purchaser's representations contained in the Agreement.  Purchaser hereby
represents and warrants as follows:

          (a)  Purchaser Bears Economic Risk.  Purchaser has substantial
experience in evaluating and investing in private placement transactions of
securities in companies similar to the Company so that it is capable of
evaluating the merits and risks of its investment in the Company and has the
capacity to protect its own interests. Purchaser must bear the economic risk of
this investment indefinitely unless the Shares (or the Conversion Shares) are
registered pursuant to the Securities Act, or an exemption from registration is
available. Purchaser understands that the Company has no present intention of
registering the Shares, the Conversion Shares or any shares of its Common Stock.
Purchaser also understands that there is no assurance that any exemption from
registration under the Securities Act will be available and that, even if
available, such exemption may not allow Purchaser to transfer all or any portion
of the Shares or

                                       9.
<PAGE>

the Conversion Shares under the circumstances, in the amounts or at the times
Purchaser might propose.

          (b)  Acquisition for Own Account.  Purchaser is acquiring the Shares
and the Conversion Shares for Purchaser's own account for investment only, and
not with a view towards their distribution.

          (c) Purchaser Can Protect Its Interest.  Purchaser represents that by
reason of its, or of its management's, business or financial experience,
Purchaser has the capacity to protect its own interests in connection with the
transactions contemplated in this Agreement.  Further, Purchaser is aware of no
publication of any advertisement in connection with the transactions
contemplated in the Agreement.

          (d)  Accredited Investor.  Purchaser represents that it is an
accredited investor within the meaning of Regulation D under the Securities Act.

          (e)  Rule 144.  Purchaser acknowledges and agrees that the Shares,
and, if issued, the Conversion Shares must be held indefinitely unless they are
subsequently registered under the Securities Act or an exemption from such
registration is available. Purchaser has been advised or is aware of the
provisions of Rule 144 promulgated under the Securities Act as in effect from
time to time, which permits limited resale of shares purchased in a private
placement subject to the satisfaction of certain conditions, including, among
other things, the availability of certain current public information about the
Company, the resale occurring following the required holding period under Rule
144 and the number of shares being sold during any three-month period not
exceeding specified limitations.

          (f)  Residence.  If the Purchaser is an individual, then the Purchaser
resides in the state or province identified in the address of the Purchaser set
forth on Exhibit A; if the Purchaser is a partnership, corporation, limited
         ---------
liability company or other entity, then the office or offices of the Purchaser
in which its investment decision was made is located at the address or addresses
of the Purchaser set forth on Exhibit A.
                              ---------

     4.3  Transfer Restrictions.  Each Purchaser acknowledges and agrees that
the Shares and, if issued, the Conversion Shares are subject to restrictions on
transfer as set forth in the Investors' Rights Agreement.

SECTION 5.  CONDITIONS TO CLOSING

     5.1  Conditions to Purchasers' Obligations at the Closing. Purchasers'
obligations to purchase the Shares at the Closing are subject to the
satisfaction, at or prior to the Closing, of the following conditions:

          (a)  Representations and Warranties True; Performance of Obligations.
The representations and warranties made by the Company in Section 3 hereof shall
be true and correct in all material respects as of the Closing Date with the
same force and effect as if they had been made as of the Closing Date, and the
Company shall have performed all obligations and conditions herein required to
be performed or observed by it on or prior to the Closing.

                                      10.
<PAGE>

          (b)  Legal Investment.  On the Closing Date, the sale and issuance of
the Shares and the proposed issuance of the Conversion Shares shall be legally
permitted by all laws and regulations to which Purchasers and the Company are
subject.

          (c)  Consents, Permits, and Waivers.  The Company shall have obtained
any and all consents, permits and waivers necessary or appropriate for
consummation of the transactions contemplated by the Agreement and the
Investors' Rights Agreement (except for such as may be properly obtained
subsequent to the Closing).

          (d)  Filing of Certificate.  The Certificate shall have been filed
with the Secretary of State of the State of Delaware.

          (e)  Reservation of Conversion Shares.  The Conversion Shares issuable
upon conversion of the Shares shall have been duly authorized and reserved for
issuance upon such conversion.

          (f)  Compliance Certificate.  The Company shall have delivered to
Purchasers a Compliance Certificate, executed by an officer of the Company,
dated as of the Closing Date, to the effect that the conditions specified in
subsections (a), (c), (d) and (e) of this Section 5.1 have been satisfied.

          (g)  Amended and Restated Investors' Rights Agreement. An Amended and
Restated Investors' Rights Agreement, substantially in the form attached hereto
as Exhibit C, shall have been executed and delivered by the parties thereto.
   ---------

          (h)  Board of Directors.  Upon the Closing, the authorized size of the
Board of Directors of the Company shall be seven (7) members and the Board shall
consist of Drs. Marvin Caruthers, Ralph Christoffersen, Arnold Levine and Thomas
Marr and Messrs. Robert Nelsen and James Rathmann and Ms. Teresa Ayers.

          (i)  Proceedings and Documents.  All corporate and other proceedings
in connection with the transactions contemplated at the Closing hereby, all
documents and instruments incident to such transactions and all documents,
instruments and proceedings related to the Purchasers' business, technical and
legal due diligence shall be reasonably satisfactory in substance and form to
the Purchasers and their special counsel, and the Purchasers and such special
counsel shall have received all such counterpart originals or certified or other
copies of such documents as they may reasonably request.

     5.2  Conditions to Obligations of the Company.  The Company's obligation to
issue and sell the Shares at the Closing is subject to the satisfaction, on or
prior to the Closing, of the following conditions:

          (a)  Representations and Warranties True.  The representations and
warranties made by the Purchasers in Section 4 hereof shall be true and correct
in all material respects as of the Closing Date, with the same force and effect
as if they had been made on and as of said date.

                                      11.
<PAGE>

          (b)  Performance of Obligations.  Purchasers shall have performed and
complied with all agreements and conditions herein required to be performed or
complied with by Purchasers on or before the Closing.

          (c)  Filing of Certificate. The Certificate shall have been filed with
the Secretary of State of the State of Delaware.

          (d)  Amended and Restated Investors' Rights Agreement. An Amended and
Restated Investors' Rights Agreement, substantially in the form attached hereto
as Exhibit C, shall have been executed and delivered by the Purchasers.
   ---------

          (e)  Consents, Permits, and Waivers. The Company shall have obtained
any and all consents, permits and waivers necessary or appropriate for
consummation of the transactions contemplated by the Agreement and the
Investors' Rights Agreement (except for such as may be properly obtained
subsequent to the Closing).

SECTION 6. MISCELLANEOUS

     6.1  Governing Law.  This Agreement shall be construed and enforced in
accordance with the laws of the State of Colorado without regard to its
conflict-of-laws rules; provided, however, that all matters of corporate law
shall be governed by Delaware General Corporation Law.

     6.2  Survival.  The representations, warranties, covenants and agreements
made herein shall survive any investigation made by any Purchaser and the
closing of the transactions contemplated hereby.  All statements as to factual
matters contained in any certificate or other instrument delivered by or on
behalf of the Company pursuant hereto in connection with the transactions
contemplated hereby shall be deemed to be representations and warranties by the
Company hereunder solely as of the date of such certificate or instrument.

     6.3  Successors and Assigns.  Except as otherwise expressly provided
herein, the provisions hereof shall inure to the benefit of, and be binding
upon, the successors, assigns, heirs, executors and administrators of the
parties hereto and shall inure to the benefit of and be enforceable by each
person who shall be a holder of the Shares from time to time.

     6.4  Entire Agreement.  This Agreement, the Exhibits and Schedules hereto,
including the Investors' Rights Agreement, and the other documents delivered
pursuant hereto constitute the full and entire understanding and agreement
between the parties with regard to the subjects hereof and no party shall be
liable or bound to any other in any manner by any representations, warranties,
covenants and agreements except as specifically set forth herein and therein.

     6.5  Severability.  In case any provision of the Agreement shall be
invalid, illegal or unenforceable, the validity, legality and enforceability of
the remaining provisions shall not in any way be affected or impaired thereby.

                                      12.
<PAGE>

     6.6  Amendment and Waiver.

          (a)  This Agreement may be amended or modified only upon the written
consent of the Company and holders of at least a majority of the Shares (treated
as if converted and including any Conversion Shares into which the Shares have
been converted that have not been sold to the public).

          (b)  The obligations of the Company and the rights of the holders of
the Shares and the Conversion Shares under the Agreement may be waived only with
the written consent of the holders of at least a majority of the Shares (treated
as if converted and including any Conversion Shares into which the Shares have
been converted that have not been sold to the public).

     6.7  Delays or Omissions.  It is agreed that no delay or omission to
exercise any right, power or remedy accruing to any party, upon any breach,
default or noncompliance by another party under this Agreement, the Investors'
Rights Agreement or the Certificate, shall impair any such right, power or
remedy, nor shall it be construed to be a waiver of any such breach, default or
noncompliance thereafter occurring. It is further agreed that any waiver,
permit, consent or approval of any kind of character on any Purchaser's part of
any breach, default or noncompliance under this Agreement, the Investors' Rights
Agreement or under the Certificate or any waiver on such party's part of any
provisions or conditions of the Agreement, the Investors' Rights Agreement or
the Certificate must be in writing and shall be effective only to the extent
specifically set forth in such writing. All remedies, either under this
Agreement, the Investors' Rights Agreement, the Certificate, by law, or
otherwise afforded to any party, shall be cumulative and not alternative.

     6.8  Notices.  All notices required or permitted hereunder shall be in
writing and shall be deemed effectively given:  (i) upon personal delivery to
the party to be notified; (ii) when sent by confirmed telex or facsimile if sent
during normal business hours of the recipient, if not, then on the next business
day; (iii) five (5) days after having been sent by registered or certified mail,
return receipt requested, postage prepaid; or (iv) one (1) day after deposit
with a nationally recognized overnight courier, specifying next day delivery,
with written verification of receipt.  All communications shall be sent to the
Company at the address as set forth on the signature page hereof and to
Purchaser at the address set forth on Exhibit A attached hereto or at such other
                                      ---------
address as the Company or Purchaser may designate by ten (10) days advance
written notice to the other parties hereto.

     6.9  Titles and Subtitles.  The titles of the sections and subsections of
the Agreement are for convenience of reference only and are not to be considered
in construing this Agreement.

     6.10 Counterparts.  This Agreement may be executed in any number of
counterparts, each of which shall be an original, but all of which together
shall constitute one instrument.

     6.11 Broker's Fees.  Each party hereto represents and warrants that no
agent, broker, investment banker, person or firm acting on behalf of or under
the authority of such party hereto is or will be entitled to any broker's or
finder's fee or any other commission directly or indirectly

                                      13.
<PAGE>

in connection with the transactions contemplated herein. Each party hereto
further agrees to indemnify each other party for any claims, losses or expenses
incurred by such other party as a result of the representation in this Section
6.11 being untrue.

     6.12  Expenses.  The Company shall pay all costs and expenses that it
incurs with respect to the negotiation, execution, delivery and performance of
the Agreement. The Company shall reimburse the reasonable fees and expenses of
one counsel to the Purchasers, not to exceed $25,000, incurred in connection
with the negotiation, execution and delivery of this Agreement.

     6.13  Attorneys' Fees.  In the event that any dispute among the parties to
this Agreement should result in litigation, the prevailing party in such dispute
shall be entitled to recover from the losing party all fees, costs and expenses
of enforcing any right of such prevailing party under or with respect to this
Agreement, including without limitation, such reasonable fees and expenses of
attorneys and accountants, which shall include, without limitation, all fees,
costs and expenses of appeals.

     6.14  Exculpation Among Purchasers.  Each Purchaser acknowledges that it is
not relying upon any person, firm, or corporation, other than the Company and
its officers and directors, in making its investment or decision to invest in
the Company.  Each Purchaser agrees that no Purchaser nor the respective
controlling persons, officers, directors, partners, agents, or employees of any
Purchaser shall be liable for any action heretofore or hereafter taken or
omitted to be taken by any of them in connection with the Shares and Conversion
Shares.

                 [REMAINDER OF PAGE INTENTIONALLY LEFT BLANK]

                                      14.
<PAGE>

     In Witness Whereof, the parties hereto have executed the Series C Preferred
Stock Purchase Agreement as of the date set forth in the first paragraph hereof.

COMPANY:                            PURCHASERS:

Genomica Corporation                _______________________________
4001 Discovery Drive
Boulder, CO  80303

By:___________________________      By:____________________________

Name:  Teresa W. Ayers              Name:__________________________

Title:  Chief Executive Officer     Title:_________________________

                  Series C Preferred Stock Purchase Agreement
<PAGE>

                                   Exhibit A

                  Series C Preferred Stock Purchase Agreement

                                         Shares of Series C
                                         ------------------
Name                                      Preferred Stock       Purchase Price
----                                      ---------------       --------------

The Kaufmann Fund, Inc.                    2,245,595            $ 3,368,392.00
 Attn: Mary Ann Gray, Ph.D.
 140 East 45/th/ Street
 43/rd/ Floor
 New York, NY 10017

Falcon Technology Partners, L.P.           1,333,333            $ 2,000,000.00
 Attn: James L. Rathmann
 600 Dorset Road
 Devon, PA 19333

Invesco Global Health Sciences Fund        3,333,333            $ 5,000,000.00
 Attn:  Mr. John R. Shroer
 7800 East Union Avenue
 Mail Stop 1100
 Denver, CO 80237

ARCH Ventures Fund III, L.P.               1,333,333            $ 2,000,000.00
 Attn: Robert Nelsen
 1000 2/nd/ Avenue
 Suite 3700
 Seattle, WA  98104

Boulder Ventures II, L.P.                    681,500            $ 1,022,250.00
 Attn: Kyle Lefkoff
 1634 Walnut Street
 Suite 301
 Boulder, CO 80302

Boulder Ventures II (Annex), L.P.            101,834            $   152,751.00
 Attn: Kyle Lefkoff
 1634 Walnut Street
 Suite 301
 Boulder, CO 80302
<PAGE>

                                         Shares of Series C
                                         ------------------
Name                                      Preferred Stock       Purchase Price
----                                      ---------------       --------------

Anvers, L.P.                                   128,320           $   192,480.00
 Attn: Leo Swergold
 230 Park Avenue
 13/th/ Floor
 New York, NY 10169

Anvers II, L.P.                                 64,160           $    96,240.00
 Attn: Leo Swergold
 230 Park Avenue
 13/th/ Floor
 New York, NY 10169

Punk, Ziegel & Company  Investors, L.L.C.      200,178           $   300,268.00
 520 Madison Avenue
 New York, NY 10022

Tyjo Corporation Defined Benefit Plan and       66,666           $   100,000.00
 Trust
 C/O Reedland Capital Partners
 Attn:  President
 21 Tamal Vista Blvd., Suite 201
 Corte Madera, CA  94925

The Caruthers Family, L.L.C.                    33,333           $    50,000.00
 Attn:  Dr. Marvin Caruthers
 2450 Cragmoor
 Boulder, CO  80303

GC&H Investments                                16,040           $    24,060.00
 Attn: Jim Kindler
 One Maritime Plaza, 20/th/ Floor
 San Francisco, CA 94111

Marc Epstein                                    33,333           $    50,000.00
 3091 Miro Drive North
 Palm Beach Gardens, FL 33411

Stuart A. Epstein                               33,333           $    50,000.00
 3091 Miro Drive North
 Palm Beach Gardens, FL 33411

Frank A. Bonsal, Jr.                            30,000           $    45,000.00
 NEA Development Corp.
1119 St. Paul Street
Baltimore, MD  21202

Harris and Harris Group, Inc.                   33,333           $   500,000.00
 1 Rockefeller Plaza
 Rockefeller Center
 14 West 49/th/ Street
 New York, NY 10020

                                      2.
<PAGE>

                                         Shares of Series C
                                         ------------------
Name                                      Preferred Stock       Purchase Price
----                                      ---------------       --------------
David B. Musket                               16,667            $    25,000.00
MRA
 125 Cambridge Park Drive
 Cambridge MA 02140

Pegasus Technology Ventures, L.L.C.           38,343            $    57,515.00
 4430 Arapahoe Avenue
 Suite 200
 Boulder, CO 80303

------------------------------------------------------------------------------
Total                                      10,022,636           $15,033,953.00

                                      3.
<PAGE>

                                   Exhibit B

                     Restated Certificate of Incorporation
<PAGE>

                                   Exhibit C

               Amended and Restated Investors' Rights Agreement