Ownership Submission
FORM 3
UNITED STATES SECURITIES AND EXCHANGE COMMISSION
Washington, D.C. 20549

INITIAL STATEMENT OF BENEFICIAL OWNERSHIP OF SECURITIES

Filed pursuant to Section 16(a) of the Securities Exchange Act of 1934, Section 17(a) of the Public Utility Holding Company Act of 1935 or Section 30(h) of the Investment Company Act of 1940
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(Print or Type Responses)
1. Name and Address of Reporting Person *
  Bush Jonathan
2. Date of Event Requiring Statement (Month/Day/Year)
09/19/2007
3. Issuer Name and Ticker or Trading Symbol
ATHENAHEALTH INC [ATHN]
(Last)
(First)
(Middle)
C/O ATHENAHEALTH, INC., 311 ARSENAL STREET
4. Relationship of Reporting Person(s) to Issuer
(Check all applicable)
__X__ Director _____ 10% Owner
__X__ Officer (give title below) _____ Other (specify below)
CEO and President
5. If Amendment, Date Original Filed(Month/Day/Year)
(Street)

WATERTOWN, MA 02472
6. Individual or Joint/Group Filing(Check Applicable Line)
_X_ Form filed by One Reporting Person
___ Form filed by More than One Reporting Person
(City)
(State)
(Zip)
Table I - Non-Derivative Securities Beneficially Owned
1.Title of Security
(Instr. 4)
2. Amount of Securities Beneficially Owned
(Instr. 4)
3. Ownership Form: Direct (D) or Indirect (I)
(Instr. 5)
4. Nature of Indirect Beneficial Ownership
(Instr. 5)
Common Stock 698,650
D
 
Common Stock 250,000
I
See Footnote. (1)
Common Stock 15,000
I
See Footnote. (2)

Reminder: Report on a separate line for each class of securities beneficially owned directly or indirectly. SEC 1473 (7-02)
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Table II - Derivative Securities Beneficially Owned (e.g., puts, calls, warrants, options, convertible securities)
1. Title of Derivative Security
(Instr. 4)
2. Date Exercisable and Expiration Date
(Month/Day/Year)
3. Title and Amount of Securities Underlying Derivative Security
(Instr. 4)
4. Conversion or Exercise Price of Derivative Security 5. Ownership Form of Derivative Security: Direct (D) or Indirect (I)
(Instr. 5)
6. Nature of Indirect Beneficial Ownership
(Instr. 5)
Date Exercisable Expiration Date Title Amount or Number of Shares
Stock Option (Right to Buy) 03/18/2001(3) 03/18/2011 Common Stock 65,000 $ 0.62 D  
Stock Option (Right to Buy) 08/01/2003(4) 08/01/2013 Common Stock 50,000 $ 0.62 D  
Stock Option (Right to Buy) 08/01/2003(5) 08/01/2013 Common Stock 130,849 $ 0.62 D  
Stock Option (Right to Buy) 02/06/2004(6) 02/06/2014 Common Stock 100,000 $ 0.62 D  
Stock Option (Right to Buy) 04/27/2005(7) 04/27/2015 Common Stock 10,000 $ 3.5 D  
Stock Option (Right to Buy) 04/27/2005(7) 04/27/2015 Common Stock 285,537 $ 3.5 D  
Stock Option (Right to Buy) 07/27/2006(8) 07/27/2016 Common Stock 50,000 $ 6.16 D  
Stock Option (Right to Buy) 03/15/2007(9) 03/15/2017 Common Stock 45,000 $ 7.39 D  

Reporting Owners

Reporting Owner Name / Address Relationships
Director 10% Owner Officer Other
Bush Jonathan
C/O ATHENAHEALTH, INC.
311 ARSENAL STREET
WATERTOWN, MA 02472
  X     CEO and President  

Signatures

/s/ Christopher E. Nolin Attorney-in-Fact 09/19/2007
**Signature of Reporting Person Date

Explanation of Responses:

* If the form is filed by more than one reporting person, see Instruction 5(b)(v).
** Intentional misstatements or omissions of facts constitute Federal Criminal Violations. See 18 U.S.C. 1001 and 15 U.S.C. 78ff(a).
(1) These shares are owned by The Bush 2004 Gift Trust, the beneficiaries of which are certain of Mr. Bush's children.
(2) These shares are owned by The Jonathan J. Bush, Jr. 2007 Grantor Retained Annuity Trust, the beneficiaries of which are Mr. Bush and certain of his children.
(3) 100% of the options in this grant were exercisable on March 18, 2001; 100% of the options in this grant were vested as of February 1, 2005.
(4) 100% of the options in this grant were exercisable on August 1, 2003; 100% of the options in this grant were vested as of January 1, 2007.
(5) 100% of the options in this grant were exercisable on August 1, 2003; 100% of the options in this grant were vested as of July 1, 2007.
(6) 100% of the options in this grant were exercisable on February 6, 2004; 60% of the options in this grant vest in equal monthly installments until the third anniversary of the vesting start date of February 1, 2004 and the remaining 40% vest in equal monthly installments until fully vested on the fourth anniversary.
(7) 100% of the options in this grant were exercisable on April 27, 2005; 25% of the options vest yearly on the anniversary of the vesting start date of January 9, 2005 until fully vested on the fourth anniversary.
(8) 100% of the options in this grant were exercisable on July 27, 2006; 25% of the options vest yearly on the anniversary of the vesting start date of July 27, 2006 until fully vested on the fourth anniversary.
(9) 100% of the options in this grant were exercisable on March 15, 2007; 25% of the options vest yearly on the anniversary of the vesting start date of January 1, 2007 until fully vested on the fourth anniversary.

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