Tomotherapy Inc - Amended Statement of Beneficial Ownership

FORM 3	UNITED STATES SECURITIES AND EXCHANGE COMMISSION Washington, D.C. 20549 INITIAL STATEMENT OF BENEFICIAL OWNERSHIP OF SECURITIES	OMB APPROVAL OMB Number: 3235-0104 Expires: January 31, 2008 Estimated average burden hours per response... 0.5
	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

1. Name and Address of Reporting Person * Guse Shawn D	2. Date of Event Requiring Statement (MM/DD/YYYY) 5/8/2007	3. Issuer Name and Ticker or Trading Symbol TomoTherapy Inc [TTPY]
(Last)        (First)        (Middle) 1240 DEMING WAY	4. Relationship of Reporting Person(s) to Issuer (Check all applicable) _____ Director                            _____ 10% Owner ___ X ___ Officer (give title below)          _____ Other (specify below) VP, Secretary & Gen. Counsel /
(Street) MADISON, WI 53717        (City)              (State)              (Zip)	5. If Amendment, Date Original Filed (MM/DD/YYYY) 5/8/2007	6. Individual or Joint/Group Filing (Check Applicable Line) _ X _ Form filed by One Reporting Person ___ Form filed by More than One Reporting Person

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)

Table II - Derivative Securities Beneficially Owned ( e.g. , puts, calls, warrants, options, convertible securities)
1. Title of Derivate Security (Instr. 4)	2. Date Exercisable and Expiration Date (MM/DD/YYYY)		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
Employee Stock Option (right to buy)   (1)	5/8/2007	7/25/2015	Common Stock	108800	$3.46	D
Employee Stock Option (right to buy)   (2)	5/8/2007	11/17/2011	Common Stock	48139	$3.46	D
Employee Stock Option (right to buy)   (3)	5/8/2007	11/17/2011	Common Stock	6941	$3.46	D
Employee Stock Option (right to buy)   (4)	5/8/2007	12/7/2012	Common Stock	66786	$6.75	D
Employee Stock Option (right to buy)   (5)	5/8/2007	12/7/2012	Common Stock	14814	$6.75	D

Explanation of Responses:
( 1)	Options vest over a four-year period, with 27,200 option shares currently vested, 27,200 option shares vesting on 7/25/07, 27,200 option shares vesting on 7/25/08 and 27,200 option shares vesting on 7/25/09.
( 2)	Options vest over a four-year period, with 12,034 option shares currently vested, 12,035 option shares vesting on 11/17/07, 12,035 option shares vesting on 11/17/08 and 12,035 option shares vesting on 11/17/09.
( 3)	Options vest over a four-year period, with 1,735 option shares currently vested, 1,735 option shares vesting on 11/17/07, 1,735 option shares vesting on 11/17/08 and 1,736 option shares vesting on 11/17/09.
( 4)	Options vest over a four-year period, with 40,800 option shares vesting on 12/7/08, 20,400 option shares vesting on 12/7/09 and 5,586 option shares vesting on 12/7/10.
( 5)	14,814 option shares vest on 12/7/10.

Remarks: No non-derivative securities are beneficially owned.

Reporting Owners
Reporting Owner Name / Address	Relationships
	Director	10% Owner	Officer	Other
Guse Shawn D 1240 DEMING WAY MADISON, WI 53717			VP, Secretary & Gen. Counsel

Signatures
/s/ Shawn D. Guse		10/29/2007
** Signature of Reporting Person		Date

Reminder: Report on a separate line for each class of securities beneficially owned directly or indirectly.
*	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).
Note:	File three copies of this Form, one of which must be manually signed. If space is insufficient, see Instruction 6 for procedure.
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