Exhibit 10.1



INCENTIVE STOCK OPTION AGREEMENT



COLEY PHARMACEUTICAL GROUP, INC.



AGREEMENT made as of the Effective Date set forth in the Notice of Grant of Stock Options and Option Agreement
attached as Exhibit A to this Agreement, between Coley Pharmaceutical Group, Inc., a Delaware corporation having a principal place of business at 93 Worcester Street, Suite 101, Wellesley, Massachusetts 02481 (the Company), and an
employee of the Company listed and identified in Exhibit A (the Employee).



WHEREAS, the Company desires to grant to the Employee an Option to purchase shares of its common stock, $.01 par value per share (the Shares), under and for the purposes set forth in the Companys
2005 Stock Plan (the Plan) with the specific terms of such Option grant as set forth on Exhibit A hereto;



WHEREAS, the Company and the Employee understand and agree that any terms used and not defined herein have the same meanings as in the Plan; and



WHEREAS, the Company and the Employee each intend that the
Option granted herein qualify as an Incentive Stock Option (ISO).



NOW, THEREFORE, in consideration of the mutual covenants hereinafter set forth and for other good and valuable consideration, the parties hereto agree as follows:



| | 1. | GRANT OF OPTION.
| | -- | ----------------



The Company hereby grants to the Employee the right and option to purchase all or any part of an aggregate of the number of Shares listed in Exhibit
A hereto, on the terms and conditions and subject to all the limitations set forth herein, under United States securities and tax laws, and in the Plan, which is incorporated herein by reference. The Employee acknowledges receipt of a copy of
the Plan.



| | 2. | PURCHASE PRICE.
| | -- | ---------------



The purchase price of the Shares covered by the Option shall be the price per Share as set forth on Exhibit A hereto, subject to adjustment, as
provided in the Plan, in the event of a stock split, reverse stock split or other events affecting the holders of Shares after the date hereof (the Purchase Price). Payment shall be made in accordance with Paragraph 9 of the Plan.



| | 3. | EXERCISABILITY OF OPTION.
| | -- | -------------------------



Subject to the terms and conditions set forth in this Agreement and the Plan, the Option granted hereby shall become exercisable as set forth on
Exhibit A hereto which rights are cumulative and are subject to the other terms and conditions of this Agreement and the Plan including upon a Change in Control as set forth in Section 24(F) of the Plan.



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| | 4. | TERM OF OPTION.
| | -- | ---------------



The Option shall terminate ten years from the date of grant as set forth on Exhibit A or, if the Employee owns as of the date hereof more than 10%
of the total combined voting power of all classes of capital stock of the Company or an Affiliate, five years from the date of grant set forth on Exhibit A, but shall be subject to earlier termination as provided herein or in the Plan.



If the Employee ceases to be an employee of the Company or of
an Affiliate (for any reason other than the death or Disability of the Employee or termination of the Employees employment for Cause (as defined in the Plan)), the Option may be exercised, if it has not previously terminated, within three
months after the date the Employee ceases to be an employee of the Company or an Affiliate, or within the originally prescribed term of the Option, whichever is earlier, but may not be exercised thereafter. In such event, the Option shall be
exercisable only to the extent that the Option has become exercisable and is in effect at the date of such cessation of employment.



Notwithstanding the foregoing, in the event of the Employees Disability or death within three months after the termination of employment, the
Employee or the Employees Survivors may exercise the Option within one year after the date of the Employees termination of employment, but in no event after the date of expiration of the term of the Option.



In the event the Employees employment is terminated by the
Employees employer for Cause (as defined in the Plan), the Employees right to exercise any unexercised portion of this Option shall cease immediately as of the time the Employee is notified his or her employment is terminated for Cause,
and this Option shall thereupon terminate. Notwithstanding anything herein to the contrary, if subsequent to the Employees termination as an employee, but prior to the exercise of the Option, the Board of Directors of the Company determines
that, either prior or subsequent to the Employees termination, the Employee engaged in conduct which would constitute Cause, then the Employee shall immediately cease to have any right to exercise the Option and this Option shall thereupon
terminate.



In the event of the Disability of the Employee, as
determined in accordance with the Plan, the Option shall be exercisable within one year after the Employees termination of employment or, if earlier, within the term originally prescribed by the Option. In such event, the Option shall be
exercisable:



| | (a) | to the extent that the Option has become exercisable but has not been exercised as of the date of Disability; and
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| | (b) | in the event rights to exercise the Option accrue periodically, to the extent of a pro rata portion through the date of Disability of any additional vesting rights that would have
accrued on the next vesting date had the Employee not become Disabled. The proration shall be based upon the number of days accrued in the current vesting period prior to the date of Disability.
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In the event of the death of the Employee while an employee of the Company or of an Affiliate, the Option
shall be exercisable by the Participants Survivors within one year after the date of death of the Employee or, if earlier, within the originally prescribed term of the Option. In such event, the Option shall be exercisable:



| | (x) | to the extent that the Option has become exercisable but has not been exercised as of the date of death; and
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| | (y) | in the event rights to exercise the Option accrue periodically, to the extent of a pro rata portion through the date of death of any additional vesting rights that would have
accrued on the next vesting date had the Employee not died. The proration shall be based upon the number of days accrued in the current vesting period prior to the Employees date of death.
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| | 5. | METHOD OF EXERCISING OPTION.
| | -- | ----------------------------



Subject to the terms and conditions of this Agreement, the Option may be exercised by written notice to the Company or its designee, in substantially the
form of Exhibit A attached hereto. Such notice shall state the number of Shares with respect to which the Option is being exercised and shall be signed by the person exercising the Option. Payment of the purchase price for such Shares
shall be made in accordance with Paragraph 9 of the Plan. The Company shall deliver such Shares as soon as practicable after the notice shall be received, provided, however, that the Company may delay issuance of such Shares until completion of any
action or obtaining of any consent, which the Company deems necessary under any applicable law (including, without limitation, state securities or blue sky laws). The Shares as to which the Option shall have been so exercised shall be
registered in the Companys share register in the name of the person so exercising the Option (or, if the Option shall be exercised by the Employee and if the Employee shall so request in the notice exercising the Option, shall be registered in
the Companys share register in the name of the Employee and another person jointly, with right of survivorship) and shall be delivered as provided above to or upon the written order of the person exercising the Option. In the event the Option
shall be exercised, pursuant to Section 4 hereof, by any person other than the Employee, such notice shall be accompanied by appropriate proof of the right of such person to exercise the Option. All Shares that shall be purchased upon the
exercise of the Option as provided herein shall be fully paid and nonassessable.



| | 6. | PARTIAL EXERCISE.
| | -- | -----------------



Exercise of this Option to the extent above stated may be made in part at any time and from time to time within the above limits, except that no
fractional share shall be issued pursuant to this Option.



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| | 7. | NON-ASSIGNABILITY.
| | -- | ------------------



The Option shall not be transferable by the Employee otherwise than by will or by the laws of descent and distribution. The Option shall be exercisable,
during the Employees lifetime, only by the Employee (or, in the event of legal incapacity or incompetency, by the Employees guardian or representative) and shall not be assigned, pledged or hypothecated in any way (whether by operation
of law or otherwise) and shall not be subject to execution, attachment or similar process. Any attempted transfer, assignment, pledge, hypothecation or other disposition of the Option or of any rights granted hereunder contrary to the provisions of
this Section 7, or the levy of any attachment or similar process upon the Option shall be null and void.



| | 8. | NO RIGHTS AS STOCKHOLDER UNTIL EXERCISE.
| | -- | ----------------------------------------



The Employee shall have no rights as a stockholder with respect to Shares subject to this Agreement until registration of the Shares in the Companys
share register in the name of the Employee. Except as is expressly provided in the Plan with respect to certain changes in the capitalization of the Company, no adjustment shall be made for dividends or similar rights for which the record date is
prior to the date of such registration.



| | 9. | ADJUSTMENTS.
| | -- | ------------



The Plan contains provisions covering the treatment of Options in a number of contingencies such as stock splits and mergers. Provisions in the Plan for
adjustment with respect to stock subject to Options and the related provisions with respect to successors to the business of the Company are hereby made applicable hereunder and are incorporated herein by reference.



| | 10. | TAXES.
| | --- | ------



The Employee acknowledges that any income or other taxes due from him or her with respect to this Option or the Shares issuable pursuant to this Option
shall be the Employees responsibility.



In the event of a
Disqualifying Disposition (as defined in Section 15 below) or if the Option is converted into a Non-Qualified Option and such Non-Qualified Option is exercised, the Company may withhold from the Employees remuneration, if any, the minimum
statutory amount of federal, state and local withholding taxes attributable to such amount that is considered compensation includable in such persons gross income. At the Companys discretion, the amount required to be withheld may be
withheld in cash from such remuneration, or in kind from the Shares otherwise deliverable to the Employee on exercise of the Option. The Employee further agrees that, if the Company does not withhold an amount from the Employees remuneration
sufficient to satisfy the Companys income tax withholding obligation, the Employee will reimburse the Company on demand, in cash, for the amount under-withheld.



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| | 11. | PURCHASE FOR INVESTMENT.
| | --- | ------------------------



Unless the offering and sale of the Shares to be issued upon the particular exercise of the Option shall have been effectively registered under the
Securities Act of 1933, as now in force or hereafter amended (the 1933 Act), the Company shall be under no obligation to issue the Shares covered by such exercise unless and until the following conditions have been fulfilled:



| | (a) | The person(s) who exercise the Option shall warrant to the Company, at the time of such exercise, that such person(s) are acquiring such Shares for their own respective accounts,
for investment, and not with a view to, or for sale in connection with, the distribution of any such Shares, in which event the person(s) acquiring such Shares shall be bound by the provisions of the following legend which shall be endorsed upon the
certificate(s) evidencing the Shares issued pursuant to such exercise:
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The shares represented by this certificate have been taken for investment and they may not be sold or otherwise transferred by any person, including a pledgee, unless (1) either (a) a Registration
Statement with respect to such shares shall be effective under the Securities Act of 1933, as amended, or (b) the Company shall have received an opinion of counsel satisfactory to it that an exemption from registration under such Act is then
available, and (2) there shall have been compliance with all applicable state securities laws; and



| | (b) | If the Company so requires, the Company shall have received an opinion of its counsel that the Shares may be issued upon such particular exercise in compliance with the 1933 Act
without registration thereunder. Without limiting the generality of the foregoing, the Company may delay issuance of the Shares until completion of any action or obtaining of any consent, which the Company deems necessary under any applicable law
(including without limitation state securities or blue sky laws).
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| | 12. | RESTRICTIONS ON TRANSFER OF SHARES.
| | --- | -----------------------------------



12.1 If, in connection with a registration statement filed by the Company pursuant to the Securities Act, the Company or its underwriter so requests, the
Employee will agree not to sell any Shares for a period not to exceed 180 days following the effectiveness of such registration.



12.2 The Employee acknowledges and agrees that neither the Company, its shareholders nor its directors and officers, has any duty or obligation to
disclose to the Employee any material information regarding the business of the Company or affecting the value of the Shares before, at the time of, or following a termination of the employment of the Employee by the Company, including, without
limitation, any information concerning plans for the Company to make a public offering of its securities or to be acquired by or merged with or into another firm or entity.



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| | 13. | NO OBLIGATION TO EMPLOY.
| | --- | ------------------------



The Company is not by the Plan or this Option obligated to continue the Employee as an employee of the Company or an Affiliate. The Employee acknowledges:
(i) that the Plan is discretionary in nature and may be suspended or terminated by the Company at any time; (ii) that the grant of the Option is a one-time benefit which does not create any contractual or other right to receive future
grants of options, or benefits in lieu of options; (iii) that all determinations with respect to any such future grants, including, but not limited to, the times when options shall be granted, the number of shares subject to each option, the
option price, and the time or times when each option shall be exercisable, will be at the sole discretion of the Company; (iv) that the Employees participation in the Plan is voluntary; (v) that the value of the Option is an
extraordinary item of compensation which is outside the scope of the Employees employment contract, if any; and (vi) that the Option is not part of normal or expected compensation for purposes of calculating any severance, resignation,
redundancy, end of service payments, bonuses, long-service awards, pension or retirement benefits or similar payments.



| | 14. | OPTION IS INTENDED TO BE AN ISO.
| | --- | --------------------------------



The parties each intend that the Option be an ISO so that the Employee (or the Employees Survivors) may qualify for the favorable tax treatment
provided to holders of Options that meet the standards of Section 422 of the Code. Any provision of this Agreement or the Plan which conflicts with the Code so that this Option would not be deemed an ISO is null and void and any ambiguities
shall be resolved so that the Option qualifies as an ISO. Nonetheless, if the Option is determined not to be an ISO, the Employee understands that neither the Company nor any Affiliate is responsible to compensate him or her or otherwise make up for
the treatment of the Option as a Non-qualified Option and not as an ISO. The Employee should consult with the Employees own tax advisors regarding the tax effects of the Option and the requirements necessary to obtain favorable tax treatment
under Section 422 of the Code, including, but not limited to, holding period requirements.



| | 15. | NOTICE TO COMPANY OF DISQUALIFYING DISPOSITION.
| | --- | -----------------------------------------------



The Employee agrees to notify the Company in writing immediately after the Employee makes a Disqualifying Disposition of any of the Shares acquired
pursuant to the exercise of the Option. A Disqualifying Disposition is defined in Section 424(c) of the Code and includes any disposition (including any sale) of such Shares before the later of (a) two years after the date the Employee was
granted the Option or (b) one year after the date the Employee acquired Shares by exercising the Option, except as otherwise provided in Section 424(c) of the Code. If the Employee has died before the Shares are sold, these holding period
requirements do not apply and no Disqualifying Disposition can occur thereafter.



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| | 16. | NOTICES.
| | --- | --------



Any notices required or permitted by the terms of this Agreement or the Plan shall be given by recognized courier service, facsimile, registered or
certified mail, return receipt requested, addressed as follows:



If to the Company:



At its principal business office listed on the

first page of this Agreement



If to the Participant:



At the address set forth on Exhibit A



or to such other address or addresses of which notice in the same manner has previously been
given. Any such notice shall be deemed to have been given upon the earlier of receipt, one business day following delivery to a recognized courier service or three business days following mailing by registered or certified mail.



| | 17. | GOVERNING LAW.
| | --- | --------------



This Agreement shall be construed and enforced in accordance with the law of the State of Delaware, without giving effect to the conflict of law
principles thereof. For the purpose of litigating any dispute that arises under this Agreement, the parties hereby consent to exclusive jurisdiction in the Commonwealth of Massachusetts and agree that such litigation shall be conducted in the courts
of Norfolk County, Massachusetts or the federal courts of the United States for the District of Massachusetts.



| | 18. | BENEFIT OF AGREEMENT.
| | --- | ---------------------



Subject to the provisions of the Plan and the other provisions hereof, this Agreement shall be for the benefit of and shall be binding upon the heirs,
executors, administrators, successors and assigns of the parties hereto.



| | 19. | ENTIRE AGREEMENT.
| | --- | -----------------



This Agreement, together with Exhibit A hereto and the Plan, embodies the entire agreement and understanding between the parties hereto with
respect to the subject matter hereof and supersedes all prior oral or written agreements and understandings relating to the subject matter hereof. No statement, representation, warranty, covenant or agreement not expressly set forth in this
Agreement shall affect or be used to interpret, change or restrict, the express terms and provisions of this Agreement, provided, however, in any event, this Agreement shall be subject to and governed by the Plan.



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| | 20. | MODIFICATIONS AND AMENDMENTS.
| | --- | -----------------------------



The terms and provisions of this Agreement may be modified or amended as provided in the Plan.



| | 21. | WAIVERS AND CONSENTS.
| | --- | ---------------------



Except as provided in the Plan, the terms and provisions of this Agreement may be waived, or consent for the departure therefrom granted, only by written
document executed by the party entitled to the benefits of such terms or provisions. No such waiver or consent shall be deemed to be or shall constitute a waiver or consent with respect to any other terms or provisions of this Agreement, whether or
not similar. Each such waiver or consent shall be effective only in the specific instance and for the purpose for which it was given, and shall not constitute a continuing waiver or consent.



| | 22. | DATA PRIVACY.
| | --- | -------------



By entering into this Agreement, the Employee: (i) authorizes the Company and each Affiliate, and any agent of the Company or any Affiliate
administering the Plan or providing Plan recordkeeping services, to disclose to the Company or any of its Affiliates such information and data as the Company or any such Affiliate shall request in order to facilitate the grant of options and the
administration of the Plan; (ii) waives any data privacy rights he or she may have with respect to such information; and (iii) authorizes the Company and each Affiliate to store and transmit such information in electronic form.



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IN WITNESS WHEREOF, the Company has caused this Agreement to be executed by its duly authorized officer,
and the Employee has hereunto set his or her hand, all as of the day and year first above written.



COLEY PHARMACEUTICAL GROUP, INC.By:Name: Title:




EMPLOYEESignaturePrint Name




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Exhibit A



NOTICE OF EXERCISE OF INCENTIVE STOCK OPTION



|TO: | Coley Pharmaceutical Group, Inc.
|--- | --------------------------------



Ladies and Gentlemen:



I hereby exercise my Incentive Stock Option to purchase _________ shares (the Shares) of the common stock, $.01 par value, of Coley Pharmaceutical Group, Inc.
(the Company), at the exercise price of $________ per share, pursuant to and subject to the terms of that certain Incentive Stock Option Agreement between the undersigned and the Company dated _______________, 200_.



I understand the nature of the investment I am making and the financial risks
thereof. I am aware that it is my responsibility to have consulted with competent tax and legal advisors about the relevant national, state and local income tax and securities laws affecting the exercise of the Option and the purchase and subsequent
sale of the Shares.



I am paying the option exercise price for
the Shares as follows:





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Please issue the Shares (check one):



 ̈to me; or



 ̈to me and
____________________________, as joint tenants with right of survivorship,



at the following address:



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My mailing address for
shareholder communications, if different from the address listed above, is:





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A-1



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Very truly yours,Employee (signature)Print NameDateSocial Security Number