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PATENT 

ATTORNEY DOCKET NO. 50125/107001 



Certificate of Mailing: Date of Deposit: March 14, 2007 

1 hereby certify under 37 C.F.R. § 1.8(a) that this correspondence is being deposited with the United States Postal 
Service as first class mail with sufficient postage on the date indicated above and is addressed to Mail Stop 
Amendment, Commissioner for Patents, P.O. Box 1450, Alexandria, VA 22313-1450. 

Megan Kilev MA j ^ <= T^ jfaj 

Printed name of person mailing correspondence Signature/^" person mailfag correspondence 



(7 

IN THE UNITED STATES PATENT AND TRADEMARK OFFICE 
Applicant: Giulioetal. Confirmation No.: 2727 

Serial No.: 10/555,896 Art Unit: Not Yet Assigned 

Filed: November 7, 2005 Examiner: Not Yet Assigned 

Customer No.: 21559 

Title: PROCESS FOR THE IDENTIFICATION OF NEW MEDICAL TARGETS 

Mail Stop Amendment 
Commissioner for Patents 
P.O. Box 1450 
Alexandria, VA 22313-1450 

INFORMATION DISCLOSURE STATEMENT 

Applicants submit the references listed on the enclosed Form PTO-1449, copies of 

which are enclosed. A copy of a search report from a corresponding international 

application is also enclosed. 

Submission of this statement is not a representation that a search has been made, 

nor is the inclusion of information in this statement an admission that the information is 

material to patentability. 



v. 



This statement is being filed before the receipt of a first Office action on the 



merits. 



If there are any charges or any credits, please apply them to Deposit Account 



No. 03-2095. 



Respectfully submitted^ 



Date: 




Clark & Elbing LLP 
101 Federal Street 
Boston, MA 021 10 
Telephone: 617-428-0200 
Facsimile: 617-428-7045 




ti tia-Bieke^ Brddyr Ph.D 
39, m 



J. Cooper McDonald, Ph.D. 
Reg. No. 52,011 



2 




Sheet 1 of 4 



^OTBTITUTE FORM PTO-1449 U.S. DEPARTMENT OF COMMERCE 


Muorney uuckci i\io. 


sni9^/in7nm 


(MODIFIED) PATENT AND TRADEMARK OFFICE 


Qpri?)l No 

Owl Idl I^IU. 


10/555 896 




Applicant 


Giulio et al. 


INFORMATION DISCLOSURE 






STATEMENT BY APPLICANT 


Filing Date 


Nov. 7, 2005 


(Use several sheets if necessary) 








Group 


Not Yet Assigned 


(37C.F.R. § 1.98(b)) 


IDS Filed 


March 14, 2007 



U.S. PATENT DOCUMENTS 


Examiner's 
Initials 


Document 
Number 


Publication 
Date 


Patentee or Applicant 


Class 


Subclass 


Filing Date 
(If Appropriate) 
















FOREIGN PATENT OR PUBLISHED FOREIGN PATENT APPLICATION 


Examiner's 
Initials 


Document 
Number 


Publication 
Date 


Country or 
Patent Office 


Class 


Subclass 


Translation 
(Yes/No) 




EP 1 105 508 B1 


Sept. 4, 2002 


EPO 










EP 1 464 960 A1 


Oct. 6, 2004 


EPO 










WO 99/35109 


Jul. 15, 1999 


WIPO 










WO 00/09716 


Feb. 24, 2000 


WIPO 










WO 00/60066 


Oct. 12, 2000 


WIPO 










WO 00/67737 


Nov. 16, 2000 


WIPO 










WO 02/057792 
A2 


Jul. 25, 2002 


WIPO 










WO 03/00301 2 A1 


Jan. 9, 2003 


WIPO 








OTHER DOCUMENTS (INCLUDING AUTHOR, TITLE, DATE, PLACE OF PUBLICATION) 




Banks et al. "Fluorescence Polarization Assays for High Throughput Screening of G Protein-Coupled Receptors," J 
Biomol Screen. 5:159-167 (2000). 




Brown, "New Approaches for Cell-Specific Targeting: Identification of Cell-Selective Peptides from Combinatorial 
Libraries," CurrOpin Chem Biol. 4:16-21 (2000). 




Burke et al. "BMS-345541 Is a Highly Selective Inhibitor of I^B Kinase That Binds at an Allosteric Site of the Enzyme 
and Blocks NF-^B-dependent Transcription in Mice," J Bio Chem. 278(3): 1450-56 (2003). 



EXAMINER 



DATE CONSIDERED 



EXAMINER: Initial citation considered. Draw line through citation if not in conformance and not considered. Include copy of this 
form with the next communication to applicant. 



IP, 



UAH i 



Sheet 2 of 4 



!g§$£j^E FORM PTO-1449 U.S. DEPARTMENT OF COMMERCE 


Attorney uocKei ino. 


^019^/1 07001 
D\J I £.01 \ \JI\J\J 1 


~7MOl5lFIED) PATENT AND TRADEMARK OFFICE 


oci la i i iu. 


10/555 896 




Applicant 


Giulio et al. 


INFORMATION DISCLOSURE 






STATEMENT BY APPLICANT 


Filing Date 


Nov. 7, 2005 


(Use several sheets if necessary) 






Group 


Not Yet Assigned 


(37C.F.R. § 1.98(b)) 


IDS Filed 


March 14, 2007 



Davis et al. "Comparison of High Throughput Screening Technologies for Luminescence Cell-Based Reporter 
Screens," J Biomol Screen. 7(1 ): 67-77 (2002). 



Gavin et al. "Functional organization of the yeast proteome by systematic analysis of protein complexes," Nature, 
415:141-47 (2002). 



Graves et al. "Discovery of Novel Targets of Quinoline Drugs in the Human Purine Binding Proteome," Mol 
Pharmacol. 62(6): 1364-72 (2002). 



Imamura et al. "Purification and Properties of Carbonyl Reductase from Rabbit Kidney," Arch Biochem Biophys. 
300(2): 570-76(1993). 



Inazu et al. "Carbonyl reductase from human testis: purification and comparison with carbonyl reductase from human 
brain and rat testis," Biochimica et Biophysica Acta. 1 1 16:50-56 (1992). 



Iwata et al. "Carbonyl reductases from rat testis and vas deferens," Eur J Biochem. 193:75-81 (1990). 



Kariv et al. "High Throughput Quantitation of cAMP Production Mediated by Activation of Seven Transmembrane 
Domain Receptors," J Biomol Screen. 4(1): 27-32 (1999). 



Klumpp et al. "Ligand Binding to Transmembrane Receptors on Intact Cells or Membrane Vesicles Measured in a 
Homogenous 1 -Microliter Assay Format," J Biomol Screen. 6(3): 159-70 (2001). 



Knockaert et al. "Intracellular Targets of Cyclin-Dependent Kinase Inhibitors: Identification by Affinity 
Chromatography Using Immobilised Inhibitors," Chem Biol. 7:41 1-22 (2000). 



Knockaert et al. "Intracellular Targets of Paullones: Identification Following Affinity Purification of Immobilized 
Inhibitor," J Biol Chem. 277(28): 25493-501 (2002). 



Kwok et al., The Anti-Inflammatory Natural Product Parthenolide from the Medicinal Herb Feverfew Directly Binds to 
and Inhibits IkB Kinase," Chem Biol. 8:759-66 (2001). 



Lin et al. "A High-Throughput Fluorescent Polarization Assay for Nuclear Receptor Binding Utilized Crude Receptor 
Extract," Anal Biochem. 300:15-21 (2002). 



Maffia et al. "Miniaturization of a Mammalian Cell-Based Assay: Luciferase Reporter Gene Readout in a 3 Microliter 
1536-Well Plate," J Biomol Screen. 4(3): 137-42(1999). 



Nowock et al. "Specific Protein-DNA Interaction at Four Sites Flanking the Chicken Lysozyme Gene," Cell 30:607- 
15(1982). 



Pandey et al. "Proteomics to study genes and genomes," Nature 405(6788): 837-46 (2000). 



Parker et al. "Development of High Throughput Screening Assays Using Fluorescence Polarization: Nuclear 
Receptor-Ligand-Binding and Kinase/Phosphatase Assays," J Biomol Screen. 5(2): 77-88 (2000). 



EXAMINER 



DATE CONSIDERED 



EXAMINER: Initial citation considered. Draw line through citation if not in conformance and not considered. Include copy of this 
form with the next communication to applicant. 




Sheet 3 of 4 



^SUBSTITUTE FORM PTO-1449 U.S. DEPARTMENT OF COMMERCE 


Miiorney uocKei ino. 


^rn OGiiA H7nni 


(MODIFIED) PATENT AND TRADEMARK OFFICE 


Sprial No 


10/555 896 




Applicant 


Giulio etal. 


INFORMATION DISCLOSURE 






STATEMENT BY APPLICANT 


Filing Date 


Nov. 7, 2005 


(Use several sheets if necessary) 








Group 


Not Yet Assigned 


(37C.F.R. § 1.98(b)) 


IDS Filed 


March 14,2007 



Perkins et al. "Probability-based protein identification by searching sequence databases using mass spectrometry 
data," Electrophoresis 20:3551-67 (1999). 



Pillutla et al. °A Surrogate-Based Approach for Post-Genomic Partner Identification," BMC Biotech. 1 :6 (2001 ) 9 pp. 



Pin et al. "Analysis of Protein-Peptide Interaction by a Miniaturized Fluorescence Polarization Assay Using Cyclin- 
Dependent Kinase 2/Cyclin E as a Model System," Anal Biochem, 275:156-61 (1999). 



Puig et al. "The Tandem Affinity Purification (TAP) Method: A General Procedure of Protein Complex Purification,' 
Methods 24:218-29(2001). 



Ridley et al. "rho family GTPase activating proteins p190, bcr and rhoGAP show distinct specificities in vitro and in 
vivo," The EMBOJ. 12(13): 5151-60 (1993). 



Rigaut et al., "A Generic Protein Purification Method for Protein Complex Characterization and Proteome 
Exploration," Nat Biotechnol. 17:1030-32 (1999). 



Seethala et al. "A Fluorescence Polarization Competition Immunoassay for Tyrosine Kinases," Anal Biochem. 255: 
257-62 (1998) 



Seethala et al. "Fluorescence Polarization Competition Immunoassay for Tyrosine Kinases," Methods 22:61-70 
(2000). 



Seethala et al. "A Homogeneous, Fluorescence Polarization Assay for Src-Family Tyrosines Kinases," Anal Biochem. 
253:210-18(1997). 



Seethala etal (eds). Handbook of Drug Screening, Marcel Dekker, New York, (2001) pp. 5-30. 



Shevchenko et al. "Mass Spectrometric Sequencing of Proteins from Silver-Stained Polyacrylamide Gels," Anal 
Chem. 68:850-58(1996). 



Somia et al. "LFG: An anti-apoptotic gene that provides protection from Fas-mediated cell death," Proc Natl Acad 
Sci. 96(22): 12667-72(1999). 



Somia et al. "Retroviral Vector Targeting to Human Immunodeficiency Virus Type 1 -Infected Cells by Receptor 
Pseudotyping," J Virol. 74:4420-24 (2000). 



Taliani et al. "A Continuous Assay of Hepatitis C Virus Protease Based on Resonance Energy Transfer 
Depsipeptide Substrates," >4na/ Biochem. 240:60-7 (1996). 



Tewari et al. "Fas- and Tumor Necrosis Factor-induced Apoptosis Is Inhibited by the Poxvirus crmA Gene Product," 
J Biol Chem. 270:3255-60 (1995). 



Turek et al. "Development and Validation of a Competitive AKT Serine/Threonine Kinase Fluorescence Polarization 
Assay Using a Product-Specific Anti-phospho-serine Antibody," Anal Biochem. 299:45-53 (2001 ). 



EXAMINER 



DATE CONSIDERED 



EXAMINER: Initial citation considered. Draw line through citation if not in conformance and not considered. Include copy of this 
form with the next communication to applicant. 



\ 



v 



Sheet 4 of 4 





rtHS^PfTUTE F0RM PTO-1449 U.S. DEPARTMENT OF COMMERCE 


Attorney Docket No. 


DU I ZD/ \ \J( UU I 




^MODIFIED) PATENT AND TRADEMARK OFFICE 


Qprjot Wn 

MCI IOI 1 iv. 


1 0/555,896 






Applicant 


Giulio et al. 




INFORMATION DISCLOSURE 








STATEMENT BY APPLICANT 


Filing Date 


Nov. 7, 2005 




(Use several sheets if necessary) 








Group 


Not Yet Assigned 




(37C.F.R. § 1.98(b)) 


IDS Filed 


March 14, 2007 



Uetz. "Two-hybrid arrays," CurOpin Chem Biol. 6:57-62 (2001). 



Uetz et al. "A comprehensive analysis of protein-protein interactions in Saccharomyces cerevisiae," Nature 403:623- 
27 and supplemental material (2000). 



Wu et al. "Identification of a High-Affinity Anti-Phosphoserine Antibody for the Development of a Homogeneous 
Fluorescence Polarization Assay of Protein Kinase C," J Biomol Screen. 5(1 ): 23-30 (2000). 



Zhou et al. "Nuclear Receptors Have Distinct Affinities for Coactivators: Characterization by Fluorescence 
Resonance Energy Transfer," Mol. Endocrinol. 12:1594-1604 (1998). 



Zhou et al. "Use of Homogeneous Time-Resolved Fluorescence Energy Transfer in the Measurement of Nuclear 
Receptor Activation," Methods 25: 54-61 (2001). 



Written Opinion for PCT/EP2004/004883, December 28, 2005. 



EXAMINER 



DATE CONSIDERED 



EXAMINER: Initial citation considered. Draw line through citation if not in conformance and not considered. Include copy of this 
form with the next communication to applicant.