Illumina, Inc. vs The Trustees of Columbia University in the City of New York

Patent Owner Notice of Appeal

ORDER - Motions to Preserve Record Pending Appeal

Joint Motion to Preserve Record Under Seal

Errata

EXPUNGED

Termination Decision Document

Patent Owner Reply to Petitioner Supplemental Brief

Illumina Supplemental Reply Re Estoppel

Hearing Transcript

Patent Owner Additional Brief

Illumina Supplemental Brief

Order - Conduct of the Proceeding - 37 CFR 42.5, 42.20(d)

Supplemental Mandatory Notices

Illumina Updated Exhibit List

Illumina Demonstratives for Oral Argument

Illumina Reply to Opposition to Exclude Columbia Evidence

Patent Owner Demonstratives

Columbia Exhibit List No. 6

Patent Owner¿¿¿s Opposition To Petitioner¿¿¿s Motion To Exclude

Oral Argument 37 U.S.C. § 316(a)(10) and 37 C.F.R. § 42.70

Patent Owner Request for Oral Argument

Illumina Request for Oral Argument

Illumina Objections to Columbia Evidence Served with Sur-Reply

Illumina Motion to Exclude Columbia Evidence

Transcript for the Deposition of Dr. Floyd Romesberg, February 1, 2019, in IPR2018-00291, -00318, -00322, -00385, and -00797

Metzker (1998) (Marked at Dr. Menchen¿¿¿s Deposition)

Jannasch (1992) (Marked at Dr. Menchen¿¿¿s Deposition)

Patent Owner Sur-reply

Columbia Exhibit List No. 5

Patent Owner Objections to Admissibility of Petitioner Evidence

Patent Owner Notice of Deposition of Floyd Romesberg, Ph.D. Concerning Second Declaration Filed January 22, 2019

Illumina Updated Exhibit List

WO 98_53300 ¿¿¿ Pallas

USP 6,111,116 - Benshon and Menchen

IPR2017-02172 Institution denial

Metzker NAR publication information

Trainor Sept. 4-5, 2013 transcript

IUPAC Nomenclature 1979

Petitioner's Reply

USP 6,248,884 - Lam and Menchen

Ruparel and Ju, PNAS

Genet 1994

IPR2017-02174 Institution denial

Jensen, Metrologia

McGraw-Hill dictionary excerpt 1984

Solomons 1988

Morrison 1973

USP 5,808,045 ¿¿¿ Hiatt

Menchen 2019-01-14 depo transcript

Lemaire-Audoire and Genet, 1997

Greene and Wuts

CRC Handbook

USP 6,627,436 ¿¿¿ Sorge

Cyclist DNA sequencing kit manual

Hedden 1994

Menchen 2019-01-15 depo transcript

Lemaire-Audoire and Genet, Tetrahedron Ltrs 1994

Meng thesis 2006

Kutateladze FEBS [1986]

Romesberg 2d declaration

Race for 1000 dollar genome, Science 2006

WO 04_018493 ¿¿¿ Solexa

Gardner, NAR 1999

WO 04_018497 ¿¿¿ Solexa

Kraevskii, Molecular Biology, 1987

IPR2012-00007 Paper 82

IPR2012-00007 Paper 83

USP 5,614,365 ¿¿¿ Tabor

Southworth, PNAS 1996

Ju, PNAS 2006

USP 5,885,813 ¿¿¿ Davis

Yamamoto 1986

IPR2012-00007 Paper 79

Takahashi 1972

Fields 1994

Documents Romesberg considered

ORDER Granting Petitioner¿¿¿s Motion for Pro Hac Vice Admission of Edward R. Reines

Unopposed Motion for Edward R. Reines to Appear Pro Hac Vice on Behalf of Illumina, Inc.

Declaration of Edward R. Reines ISO Pro Hac Vice Motion

In Re Edward R. Reines 14-MA004 (14-4) (Fed. Cir. 2014)

Personal Statement of Edward R. Reines

Petitioners Supplemental Power of Attorney

Petitioners Updated Exhibit List

Petitioners Supplemental Mandatory Notice adding Derek Walter and Edward R. Reines as Backup Counsel

Illumina Notice of Menchen Deposition

Supplemental Mandatory Notices

DECISION Motion to Seal and for Protective Order

Illumina Response to Columbia Motion to Seal

Illumina Objections to Columbia Evidence

Transcript for the Deposition of Dr. Floyd Romesberg, October 9, 2018, in IPR2018-00797

Dr. Romesberg NIH Grant, Evolving Novel Polymerases for Genome Sequencing

Protective Order in D.Del. C.A. No. 17-973 (GMS)

Transcript for the Deposition of Dr. Floyd Romesberg, September 19-20, 2018, in IPR2018-00291, -00318, -00322, and -00385 (REVISED TRANSCRIPT)

Internal Illumina Email (PUBLIC)

Internal Illumina Email (PUBLIC)

Attachment to Ex. 2122 (PUBLIC)

Attachment to Ex. 2122 (PUBLIC)

Proposed Standing Protective Order

Internal Solexa Email (PUBLIC)

Documents Considered By Dr. Menchen For Exhibit 2116

Declaration of Steven M. Menchen, Ph.D., October 26, 2018 (IPR2018-00291, -00318, -00322, and -00385)

Patent Owner's Response (PUBLIC)

Columbia's Exhibit List No. 4

Patent Owner's Motion to Seal

Patent Owner's Response (SEALED)

Internal Solexa Email (SEALED)

Internal lllumina Email (SEALED)

Attachment to Ex. 2122 (SEALED)

Internal lllumina Email (SEALED)

Attachment to Ex. 2122 (SEALED)

Metzker (2010)

Ronaghi (1998)

Genomeweb, Illumina Closes Solexa Acquisition, January 26, 2007

Curriculum Vitae of Steven M. Menchen, Ph.D.

IPR2013-00266, Exhibit 2037, Second Declaration of Floyd Romesberg, Ph.D. (March 21, 2014)

IPR2013-00266, Exhibit 1042, Deposition of Floyd Romesberg, Ph.D. (April 10, 2014)

Kit (1963)

Exhibit from Deposition of Dr. Floyd Romesberg, September 19-20, 2018, in IPR2018-00291, -00318, -00322, and -00385 (Handwritten calculations)

Qian (1999)

Project Information for Dr. Romesberg NIH Grant, Evolving Novel Polymerases for Genome Sequencing

Genomeweb, Helicos and Columbia to Test Scripps¿¿¿ Improved Polymerase for Next-Gen Sequencing, October 3, 2006

Bieg (1985)

Lindahl (1993)

Johnson (1995)

Excerpts from the Ex Parte Reexamination History of U.S. Patent No. 6,232,465

IPR2013-00128, Exhibit 1033, Deposition of Floyd Romesberg, Ph.D. (January 14, 2014)

IPR2013-00128, Substitute Exhibit 2009, Substitute Declaration of Floyd Romesberg, Ph.D. in Support of Patent Owner Motion to Amend (February 19, 2014)

Jannasch (1992)

Levine (1963)

Lindahl & Nyberg (1972)

Hamed (2001)

Pillai & Nandi (1977)

U.S. Patent No. 6,664,079

Transcript for the Deposition of Dr. Floyd Romesberg, September 19-20, 2018, in IPR2018-00291, -00318, -00322, and -00385 (ORIGINAL TRANSCRIPT)

Kang (1995)

U.S. Patent No. 5,858,671

U.S. Patent No. 6,013,445

Tsuji (1982)

Qian (2000)

Ochiai (1996)

WO 96/27025

WO 96/23807

Hawley (1997)

IPR2017-02172, Paper 22, Decision Denying Petitioner Request for Rehearing (August 2, 2018)

Eckert (1991)

Katritzky (1995)

Martinez (1997)

Parshall (1980)

Solexa, Inc. Form 425 Submission to the United States Securities and Exchange Commission (November 14, 2006)

AMENDED SCHEDULING ORDER 37 C.F.R. sec 42.5

Illumina suppl. mandatory notice adding N. Luman as add'l backup counsel

PANEL CHANGE ORDER

Proposal to Modify the Schedule

Patent Owner's Notice of Deposition of Floyd Romesberg, Ph.D.

Amended Scheduling Order

Order Petitioner's Motion for Pro Hac Vice Admission of William R. Zimmerman

Order Patent Owner's Motions for Pro Hac Vice Admission of Zachary L. Garrett and Robert S. Schwartz

Power of Attorney to Zachary L. Garrett

Supplemental Mandatory Notices Pursuant to 37 CFR 42.8(b)(3)

Power of Attorney to Robert S. Schwartz

Supplemental Mandatory Notice Adding William R. Zimmerman as Backup Counsel

Petitioner's Objections to Admissibility of Patent Owner Evidence

Trial Instituted Document

Scheduling Order

Columbia's Exhibit List No. 3 Under 37 CFR 42.63(e)

Patent Owner's Motion for Admission Pro Hac Vice (Garrett)

Declaration of Zachary L. Garrett in Support of Patent Owner Motion for Admission Pro Hac Vice

Supplemental Mandatory Notices Pursuant to 37 CFR 42.8(a)(3)

Illumina Motion for Zimmerman to Appear PHV

Zimmerman Decl ISO PHV Motion

Illumina Supplemental Power of Attorney

Illumina Updated Exhibit List

Illumina's Supplemental Mandatory Notice

U.S. Patent No. 7,790,869

U.S. Patent No. 7,713,698

U.S. Patent No. 8,088,575

Excerpts from the Prosecution History of U.S. Patent No. 9,725,480

IPR2013-00517, Ex. 2011, Declaration of Floyd Romesberg, Ph.D. (May 5, 2014)

IPR2013-00517, Paper 32, Illumina¿¿¿s Patent Owner Response (May 5, 2014)

Assignment data in connection with U.S. Patent No. 5,808,045

PCT Publication WO 98/33939 (¿¿¿Anazawa¿¿¿) (English translation)

Metzker, et al., ¿¿¿Stop-Start DNA Synthesis in the Base Addition Sequencing Scheme (BASS),¿¿¿ Genome Mapping & Sequencing (1994)

U.S. Patent No. 7,541,444

U.S. Patent No. 7,771,973

U.S. Patent Application Publication No. 2007/0166705

Ochiai, et al. (1996)

U.S. Patent No. 6,232,465

Excerpts from the Prosecution History of U.S. Patent No. 9,718,852

Excerpts from the Ex Parte Reexamination History of U.S. Patent No. 5,808,045

Metzker, et al., ¿¿¿Elimination of Residual Natural Nucleotides from 3¿¿¿-O-Modified-dNTP Syntheses by Enzymatic Mop-Up,¿¿¿ BioTechniques, 25:814-817 (1998)

PCT Publication WO 00/53805 (¿¿¿Stemple¿¿¿)

Boons, et al. (1996)

Olivero & Dunach (1995)

Solexa, Inc. Fed. R. Civ. P. 7.1 Statement (Feb. 19, 2010)

Litosh, et al. (2011)

U.S. Patent No. 7,566,537

Canard & Sarfati (1994)

Excerpts from the Ex Parte Reexamination History of U.S. Patent No. 6,232,465

Solexa, Inc. Schedule 13D-A Submission to the United States Securities and Exchange Commission (Feb. 2, 2007)

IPR2017-02172, Paper 6, Preliminary Response of Patent Owner Illumina Cambridge Ltd. (January 23, 2018)

IPR2017-02174, Paper 6, Preliminary Response of Patent Owner Illumina Cambridge Ltd. (January 23, 2018)

No. 2015-1123 (CAFC), Brief of Patent Owner-Appellant Illumina Cambridge Ltd., D.I. 27 (March 10, 2015)

IPR2013-00266, Paper 39, Patent Owner Illumina Reply to Petitioner Opposition to Illumina Motion to Amend (March 21, 2014)

IPR2013-00517, Paper 84, Oral Hearing Transcript (February 2, 2015)

IPR2013-00517, Paper 64, Illumina Motion for Observations on the Cross-Examination Testimony of Bruce Branchaud, Ph.D. and Michael Metzker, Ph.D. (September 2, 2014)

IPR2012-00007, Paper 5, Petition for Inter Partes Review of U.S. Pat. No. 7,790,869 (September 16, 2012)

IPR2013-00517, Exhibit 1025, Deposition of Floyd Romesberg, Ph.D. (July 28, 2014)

Assignment data in connection with U.S. Patent No. 6,232,465

IPR2012-00007, Paper 38, Decision on Petition for Inter Partes Review (March 12, 2013)

Assignment data in connection with U.S. Patent Application Publication No. 2007/0166705 and U.S. Patent No. 7,541,444

Translation Affidavit for Anazawa

PCT Publication WO 98/33939 (Japanese language version of Anazawa)

Welch & Burgess (1999)

IPR2013-00517, Paper 68, Illumina Opposition to IBS Motion To Exclude Evidence

Excerpts from the Prosecution History of U.S. Patent No. 7,771,973

Patent Owner Preliminary Response

Patent Owner's Motion for Admission Pro Hac Vice of Robert S. Schwartz Under 37 CFR 42.10(c)

Declaration of Robert S. Schwartz in Support of Patent Owner's Motion for Admission Pro Hac Vice Under 37 CFR 42.10

Columbia's Exhibit List No. 1 Under 37 CFR 42.63(e)

Illumina's Supplemental Mandatory Notice - Related Matters

PATENT OWNER'S MANDATORY NOTICES PURSUANT TO 37 C.F.R. 42.8

Notice of Accord Filing Date

PETITION FOR INTER PARTES REVIEW OF U.S. PATENT NO. 9,718,852

PETITIONER ILLUMINA, INC. POWER OF ATTORNEY

U.S. Patent No. 9,718,852

U.S. Patent No. 9,708,358

U.S. Patent No. 9,719,139

U.S. Patent No. 9,725,480

IPR2012-00007, Paper 140, Final Written Decision

IPR2012-00006, Paper 128, Final Written Decision

IPR2013-00011, Paper 130, Final Written Decision

2015-07-17 Federal Circuit Opinion Affirming IPR2012-00006, IPR2012-00007 and IPR2013-00011

Alberts, et al. (1994)

Declaration of Floyd Romesberg, Ph.D.

WO 91/06678 (Tsien)

Prober, et al. (1987)

Wu and Metzker, et al. (2007)

'852 patent file history excerpts

U.S. Patent No. 7,790,869

U.S. Patent No. 5,547,839 (Dower)

Metzker, et al. (1994)

Sanger, et al. (1977)

U.S. Patent No. 7,270,951 (Stemple)

Pelletier, et al. (1994)

U.S. Patent No. 5,302,509 (Cheeseman)

Welch, et al. (1999)

Seela, et al. (1991)

Ramzaeva, et al. (1995)

Ramzaeva, et al. (1997)

2013-06-25 Declaration of Dr. George L. Trainor from IPR2012-00006

Boss, et al. (1976)

Excerpts from Prosecution History of U.S. Patent No. 9,725,480

Vollhardt, et al. (1994)

Watson, et al. (1953)

Welch Corrgenda (2005)

U.S. Patent No. 4,804,748 (Seela Patent)

Rosenblum, et al. (1997)

Excerpts from 2013-09-04 Deposition Transcript of Dr. George L. Trainor in IPR2012-00007

U.S. Patent No. 5,151,507 (Hobbs)

Seela, et al. (1995)

Seela, et al. (1997)

Qian, et al. (1998)

Kamal, et al. (1999)

Yu, et al. (1994)

Livak, et al. (1992)

2015-02-11 Final Written Decision in IPR2013-00517

2016-05-09 Federal Circuit Opinion Affirming IPR2013-00517

2013-08-30 Substitute Columbia Patent Owner Response in IPR2012-00007

2014-07-25 Final Written Decision in IPR2013-00128

2016-01-29 Federal Circuit Opinion Affirming IPR2013-00128 and IPR2013-00266

Greenberg, et al. (1998)

Zavgorodny, et al. (1991)

Gigg, et al. (1968)

2014-10-28 Final Written Decision in IPR2013-00266

Seitz, et al. (1997)

Gullier, et al. (2000)

Stryer (1995)

List of documents considered by Floyd Romesberg, Ph.D.

U.S. Patent No. 8,088,575 (Ju)

Columbia's Complaint for U.S. 9,718,852 and U.S. 9,719,139

Curriculum Vitae of Floyd Romesberg, Ph.D.

Sears, et al. (1992)

Ju Declaration US Appl. No. 15380270