throbber
Case 1:20-cv-01644-RGA Document 1-2 Filed 12/03/20 Page 1 of 311 PageID #: 337
`Case 1:20-cv-01644-RGA Document 1-2 Filed 12/03/20 Page 1 of 311 PageID #: 337
`
`
`
`
`
`EXHIBIT 2
`
`
`
`
`
`EXHIBIT 2
`
`
`
`
`
`
`

`

`Case 1:20-cv-01644-RGA Document 1-2 Filed 12/03/20 Page 2 of 311 PageID #: 338
`I IIIII IIIIIIII Ill lllll lllll lllll lllll lllll lllll lllll lllll 111111111111111111
`US007727720B2
`
`c12) United States Patent
`Dhallan
`
`(IO) Patent No.:
`(45) Date of Patent:
`
`US 7,727,720 B2
`Jun. 1, 2010
`
`(54) METHODS FOR DETECTION OF GENETIC
`DISORDERS
`
`(75)
`
`Inventor: Ravinder S. Dhallan, Bethesda, MD
`(US)
`
`(73) Assignee: Ravgen, Inc., Columbia, MD (US)
`
`( *) Notice:
`
`Subject to any disclaimer, the term ofthis
`patent is extended or adjusted under 35
`U.S.C. 154(b) by 501 days.
`
`(21) Appl. No.: 11/212,812
`
`(22) Filed:
`
`Aug. 26, 2005
`
`(65)
`
`Prior Publication Data
`
`US 2006/0121452 Al
`
`Jun. 8,2006
`
`Related U.S. Application Data
`
`(63) Continuation of application No. PCT/US2004/
`006337, filed on Mar. 1, 2004, which is a continuation(cid:173)
`in-part of application No. PCT/US03/06198, filed on
`Feb. 28, 2003, application No. 11/212,812, which is a
`continuation of application No. 10/661,165, filed on
`Sep. 11, 2003, which is a continuation-in-partofappli(cid:173)
`cation No. PCT/US03/06198, filed on Feb. 28, 2003,
`and a continuation-in-part of application No. PCT/
`US03/27308, filed on Aug. 29, 2003.
`
`(60) Provisional application No. 60/378,354, filed on May
`8, 2002.
`
`(51)
`
`Int. Cl.
`C12Q 1/68
`(2006.01)
`C07H 21/00
`(2006.01)
`C07H 21/02
`(2006.01)
`C07H 21/04
`(2006.01)
`(52) U.S. Cl. ......................... 435/6; 536/22.1; 536/23.1;
`536/24.3; 536/25.4; 536/25.41
`(58) Field of Classification Search ..................... 435/6,
`435/91.2; 536/23.1, 24.3
`See application file for complete search history.
`
`(56)
`
`References Cited
`
`U.S. PATENT DOCUMENTS
`
`4,521,509 A
`6/1985 Benkovic et al.
`4,683,195 A
`7/1987 Mullis et al.
`4,683,202 A
`7/1987 Mullis
`4,800,159 A
`1/1989 Mullis et al.
`4,889,818 A
`12/1989 Gelfand et al.
`4,965,188 A
`10/1990 Mullis et al.
`4,994,372 A
`2/1991 Tabor et al.
`5,023,171 A
`6/1991 Ho et al.
`5,066,584 A
`11/1991 Gyllensten et al.
`5,075,216 A
`12/1991 Innis et al.
`5,079,352 A
`1/1992 Gelfand et al.
`5,091,310 A
`2/1992 Innis
`5,098,839 A
`3/1992 Polisson
`5,104,792 A
`4/1992 Silver et al.
`5,153,117 A
`10/1992 Simons
`5,326,857 A
`7/1994 Yamamoto et al.
`5,426,026 A * 6/1995 Jordan ........................... 435/6
`5,432,054 A
`7/1995 Saunders et al.
`
`5,501,963 A
`3/1996 Burckhardt et al.
`5,538,848 A
`7/1996 Livak et al.
`5,538,871 A
`7/1996 Nuovo et al.
`5,545,552 A
`8/1996 Mathur
`5,565,339 A
`10/1996 Bloch et al.
`5,576,176 A * 11/1996 Adams et al. .................. 435/5
`5,582,989 A
`12/1996 Caskey et al.
`5,618,664 A * 4/1997 Kiessling ....................... 435/2
`5,631,147 A
`5/1997 Lohman eta!.
`5,635,348 A * 6/1997 Leong ........................... 435/6
`5,639,611 A
`6/1997 Wallace et al.
`5,641,628 A
`6/1997 Bianchi
`5,648,222 A
`7/1997 Tse et al.
`5,693,469 A
`12/1997 Hogan
`5,714,325 A * 2/1998 Bianchi ......................... 435/6
`5,723,591 A
`3/1998 Livak et al.
`5,744,301 A
`4/1998 Birkenbach et al.
`5,759,772 A
`6/1998 Kirkpatrick et al.
`5,817,797 A
`10/1998 Mitchell et al.
`5,831,065 A
`11/1998 Brenner et al.
`5,858,671 A
`1/1999 Jones
`
`(Continued)
`
`FOREIGN PATENT DOCUMENTS
`
`EP
`
`0994963 Al
`
`4/2000
`
`(Continued)
`
`OTHER PUBLICATIONS
`
`Holodniy et al., Determination of Human Immunodeficiency virus
`RNA in plasma and cellular viral DNA genotypic zidovudine resis(cid:173)
`tance and viral load during zidovudine-didanosine combination
`therapy. Journal ofVirology 69 (6): 3510-3516 (1995).*
`
`(Continued)
`
`Primary Examiner-Ethan Whisenant
`(74) Attorney, Agent, or Firm-Whyte Hirschboeck Dudek
`S.C.
`
`(57)
`
`ABSTRACT
`
`The invention provides a method useful for detection of
`genetic disorders. The method comprises determining the
`sequence of alleles of a locus of interest, and quantitating a
`ratio for the alleles at the locus of interest, wherein the ratio
`indicates the presence or absence of a chromosomal abnor(cid:173)
`mality. The present invention also provides a non-invasive
`method for the detection of chromosomal abnormalities in a
`fetus. The invention is especially useful as a non-invasive
`method for determining the sequence of fetal DNA. The
`invention further provides methods of isolation of free DNA
`from a sample.
`
`30 Claims, 33 Drawing Sheets
`
`

`

`Case 1:20-cv-01644-RGA Document 1-2 Filed 12/03/20 Page 3 of 311 PageID #: 339
`
`US 7,727,720 B2
`Page 2
`
`U.S. PATENT DOCUMENTS
`
`3/1999 Western et al.
`5,882,857 A
`10/1999 Monforte et al.
`5,965,363 A
`11/1999 Shanbrom
`5,985,260 A
`12/1999 Acton
`5,998,141 A
`12/1999 Goelet et al.
`6,004,744 A
`1/2000 Jordan
`6,017,699 A
`3/2000 Schafer et al.
`6,033,861 A
`7/2000 Matson
`6,090,553 A
`8/2000 Lapidus et al.
`6,100,029 A
`8/2000 Ausubel et al.
`6,110,709 A
`9/2000 Stemmer
`6,117,679 A
`9/2000 Lizardi
`6,124,120 A
`10/2000 Stemmer
`6,132,970 A
`6,140,054 A * 10/2000 Wittwer et al. ................. 435/6
`6,153,410 A
`11/2000 Arnold et al.
`6,156,504 A
`12/2000 Gocke et al.
`6,156,886 A
`12/2000 Sone
`6,165,793 A
`12/2000 Stemmer
`6,174,681 Bl
`1/2001 Halling et al.
`6,177,263 Bl
`1/2001 Arnold et al.
`6,180,372 Bl
`1/2001 Franzen et al.
`6,180,406 Bl
`1/2001 Stemmer
`6,183,958 Bl
`2/2001 Stanton, Jr.
`6,197,563 Bl
`3/2001 Erlich et al.
`6,203,989 Bl
`3/2001 Goldberg et al.
`6,214,558 Bl
`4/2001 Shuber et al.
`6,221,600 Bl
`4/2001 MacLeod et al.
`6,225,061 Bl
`5/2001 Becker et al.
`6,251,639 Bl
`6/2001 Kum
`6,258,540 Bl
`7/2001 Lo et al.
`6,268,146 Bl
`7/2001 Shultz et al.
`6,269,957 Bl
`8/2001 Bowers et al.
`6,277,382 Bl*
`8/2001 Stoj iljkovic et al. ...... 424/249.1
`6,277,638 Bl
`8/2001 Stemmer
`6,280,949 Bl
`8/2001 Lizardi
`6,287,861 Bl
`9/2001 Stemmer et al.
`6,291,242 Bl
`9/2001 Stemmer
`6,297,053 Bl
`10/2001 Stemmer
`6,323,009 Bl
`11/2001 Lasken et al.
`6,323,030 Bl
`11/2001 Stemmer
`6,329,179 Bl* 12/2001 Kopreski ................... 435/91.2
`2/2002 Stemmer
`6,344,356 Bl
`6,357,601 Bl
`3/2002 Bowers et al.
`6,365,375 Bl
`4/2002 Dietmaier et al.
`6,372,497 Bl
`4/2002 Stemmer
`6,379,896 Bl
`4/2002 Stanton, Jr.
`6,387,621 Bl
`5/2002 Wittwer
`6,395,547 Bl
`5/2002 Stemmer
`6,413,774 Bl
`7/2002 Stemmer et al.
`6,440,706 Bl
`8/2002 Vogelstein et al.
`6,444,468 Bl
`9/2002 Stemmer et al.
`6,475,736 Bl
`11/2002 Stanton, Jr.
`6,506,561 Bl
`1/2003 Cheval et al.
`6,506,602 Bl
`1/2003 Stemmer
`6,518,065 Bl
`2/2003 Stemmer
`6,537,746 B2
`3/2003 Arnold et al.
`6,573,098 Bl
`6/2003 Stemmer
`6,573,300 B2
`6/2003 Chang et al.
`6,582,906 Bl
`6/2003 Cao et al.
`6,602,986 Bl
`8/2003 Stemmer et al.
`6,613,517 B2
`9/2003 Michelotti
`6,617,137 B2
`9/2003 Dean et al.
`6,630,301 Bl* 10/2003 Gocke et al. ................... 435/6
`6,638,722 B2
`10/2003 Ji et al.
`6,642,034 B2
`11/2003 Lizardi
`6,673,541 Bl
`1/2004 Klein et al.
`6,673,551 B2
`1/2004 Stanton, Jr.
`6,703,228 Bl
`3/2004 Landers et al.
`6,730,517 Bl
`5/2004 Koster et al.
`6,780,593 Bl
`8/2004 Galibert et al.
`6,977,162 B2
`12/2005 Dhallan
`
`7,169,555 B2 *
`7,208,274 B2
`7,332,277 B2 *
`2001/0051341 Al
`2002/0045176 Al
`2002/0119478 Al
`2003/0044388 Al
`2003/0044791 Al
`2003/0054386 Al
`2003/0082576 Al
`2003/0099964 Al
`2003/0180746 Al
`2003/0186239 Al
`2003/0232348 Al
`2003/0235834 Al
`2004/0106102 Al
`2004/0137470 Al
`2004/0185495 Al
`2005/0037388 Al
`2005/0095621 Al
`2005/0260656 Al
`2006/0160105 Al
`2007/0122835 Al
`2007/0178478 Al
`2007/0196842 Al
`2009/0203002 Al *
`
`1/2007 Stuber et al. ... ... ... .. ... ... .. 435/6
`4/2007 Dhallan
`2/2008 Dhallan ......................... 435/6
`12/2001 Lo et al.
`4/2002 Lo et al.
`8/2002 Umansky et al.
`3/2003 Dennis et al.
`3/2003 Flemington
`3/2003 Antonarakis et al.
`5/2003 Jones et al.
`5/2003 Patil et al.
`9/2003 Kmiec eta!.
`10/2003 Dhallan
`12/2003 Jones et al.
`12/2003 Dunlop eta!.
`6/2004 Dhallan
`7/2004 Dhallan
`9/2004 Schueler et al.
`2/2005 Antonarakis et al.
`5/2005 Sidransky
`11/2005 Dhallan
`7/2006 Dhallan
`5/2007 Dhallan
`8/2007 Dhallan et al.
`8/2007 Dhallan
`8/2009 Brown ........................... 435/6
`
`FOREIGN PATENT DOCUMENTS
`
`EP
`GB
`GB
`WO
`WO
`WO
`WO
`WO
`WO
`WO
`WO
`WO
`WO
`WO
`WO
`WO
`WO
`WO
`WO
`WO
`WO
`WO
`WO
`WO
`WO
`WO
`WO
`WO
`WO
`WO
`
`4/2000
`0994963 Bl
`9/1996
`2299166 A
`9/1996
`2299166 B
`6/1991
`W0-91/08304 Al
`3/1995
`W0-95/06137 Al
`3/1998
`W0-98/12355 Al
`9/1998
`W0-98/39474 Al
`10/1999
`W0-99/54498 Al
`6/2001
`W0-01/42504 A2
`6/2001
`W0-01/42504 A3
`WOOl/48237 A2 * 7/2001
`W0-02/04672 A2
`1/2002
`W0-02/04672 A3
`1/2002
`W0-02/055985 A2
`7/2002
`W0-02/055985 A3
`7/2002
`WO 02/083839 A2
`10/2002
`W0-02/083839 A3
`10/2002
`W0-03/001181 A2
`1/2003
`W0-03/001181 A3
`1/2003
`W0-03/074723 A2
`9/2003
`W0-03/074723 A3
`9/2003
`W0-03/074740 Al
`9/2003
`W0-03/106642 A2
`12/2003
`W0-03/106642 A3
`12/2003
`W0-2004/058987 A2
`7/2004
`W0-2004/058987 A3
`7/2004
`W0-2004/078994 A2
`9/2004
`W0-2004/078994 A3
`9/2004
`W0-2004/079011 Al
`9/2004
`W0-2007/075836 A2
`7/2007
`
`OTHER PUBLICATIONS
`
`Yamakami et al., PCR detection of DNA specific for Aspergillus
`species in serum of patients with invasive Aspergillosis. Journal of
`Clinical Microbiology 34 (10): 2464-2468 (1996).*
`Ahlquist, D. A. et al. (2000). "Colorectal Cancer Screening by Detec-
`tion of Altered Human DNA in Stool: Feasibility of a Multitarget
`Assay Panel," Gastroenterology 119:1219-1227.
`Amicucci, P. et al. (2000). "Prenatal Diagnosis ofMyotonic Dystro-
`phy Using Fetal DNA Obtained from Maternal Plasma," Clinical
`Chemistry 46(2):301-302.
`
`

`

`Case 1:20-cv-01644-RGA Document 1-2 Filed 12/03/20 Page 4 of 311 PageID #: 340
`
`US 7,727,720 B2
`Page 3
`
`Angert, R.M. et al. (Jan. 2003). "Fetal Cell-Free Plasma DNA Con(cid:173)
`centrations in Maternal Blood Are Stable 24 Hours after Collection:
`Analysis of First- and Third-Trimester Samples," Clinical Chemistry
`49(1):195-198.
`Anker, P. et al. (Apr. 1997). "K-ras Mutations are Found in DNA
`Extracted from the Plasma of Patients with Colo rectal Cancer," Gas(cid:173)
`troenterology 112(4):1114-1120.
`Anker, P. et al. eds. (Apr. 2000). "Circulating Nucleic Acids in Plasma
`or Serum," Table of Contents from the First International Symposium
`on Circulating Nucleic Acids in Plasma/Serum: Implication in Can(cid:173)
`cer Diagnosis, Prognosis, or Follow-up and in Prenatal Diagnosis,
`Apr. 18-20, 1999 in Menthon Saint-Bernard, France, located at
`<http://www.unige.c.h/LABPV/symposiurn/cnaps/cnaps_book.
`html> last visited on Mar. 27, 2001, four pages.
`Anonymous. (Dec. 16, 1996). "Birth Defects: Maternal Blood Gets
`Put to the Test," Physician's Weekly Clinical Updates located at:
`<http://www.physweekly.com/archive/96/12_16_l9/cu4.html>
`last visited on Mar. 27, 2001, one page.
`Anonymous. (Dec. 17, 1998). "Strategies for the Rapid Prenatal
`Detection ofDown's Syndrome," CMGS located at <http://www.ich.
`ucl/ac/uk/cmgs/downs98.html> last visited on Mar. 27, 2001, four
`pages.
`Anonymous. (2001). "Molecular Indexing (MI) Home Page," Helix
`Research Institute located at <http://www.hri.co.jp/MI> last visited
`Apr. 16, 2001, four pages.
`Anonymous. (Feb. 5, 2001 ). "Methods ofUltrasensitive Bioanalysis:
`DNA Sequencing and Indexing" Union Bay Ultrasensitive
`Bioanalysis Team located at <http://faculty.washington.edu/dovichi/
`research/application/DNA/DNASequencing.htrnl> last visited Apr.
`16, 2001, four pages.
`"AmplitTaq DNA
`(Date Unknown).
`Applied Biosystems.
`Polymerase," located at <http://www.appliedbiosystems.com> last
`visited on Jan. 7, 2007, two pages.
`Barnett, E.V. (Jun. 1968). "Detection of Nuclear Antigens (DNA) in
`Normal and Pathologic Human Fluids by Quantitative Complement
`Fixation," Arthritis and Rheumatism 11(3):407-417.
`Bauer, M.
`et al.
`(Jan. 2002).
`"Detection of Maternal
`Deoxyribonucleic Acid in Umbilical Cord Plasma by Using Fluores(cid:173)
`cent Polymerase Chain Reaction Amplification of Short Tandem
`Repeat Sequences," Am. J Obstet. Gynecol. 186:117-120.
`Beer, A.E. et al. (Sep. 7, 1994). "The Biological Basis of Passage of
`Fetal Cellular Material into the Maternal Circulation," Annals New
`York Academy of Sciences 731:21-35.
`Bennett, P.R. et al. (Aug. 26, 1993). "Prenatal Determination of Fetal
`RhD Type by DNA Amplification," The New England Journal of
`Medicine 329(9):607-610.
`Bianchi, D.W. (1998). "Current Knowledge About Fetal Blood Cells
`in the Maternal Circulation," J Perinat. Med. 26:175-185.
`Bianchi, D.W. (1998). "Fetal DNA in Maternal Plasma: The Plot
`Thickens and the Placental Barrier Thins," Am. J Hum. Genet.
`62:763-764.
`Bianchi, D.W. (2000). "A Guest Editorial: State of Fetal Cells in
`Maternal Blood: Diagnosis or Dilemma," Obstetrical and Gyneco(cid:173)
`logical Survey 55(11):665-667.
`Bianchi, D.W. (Dec. 1995). "Prenatal Diagnosis by Analysis of Fetal
`Cells in Maternal Blood," The Journal of Pediatrics 127(6):847-856.
`Bianchi, D.W. (May 2002). "Prenatal Exclusion of Recessively
`Inherited Disorders: Should Maternal Plasma Analysis Precede
`Invasive Techniques?" Clinical Chemistry 48(5):689-670.
`Bianchi, D.W. (Sep. 2000). "Fetal Cells in the Mother: From Genetic
`Diagnosis to Diseases Associated with Fetal Cell Microchimerism,"
`European Journal of Obstetrics & Gynecology and Reproductive
`Biology 92:103-108.
`Bianchi, D.W. et al. (1990). "Isolation of Fetal DNA From Nucleated
`Erythrocytes in Maternal Blood," Proc. Natl. Acad. Sci USA 87:3279-
`3283.
`Bianchi, D.W. et al. (1997). "PCR Quantitation of Fetal Cells in
`Maternal Blood in Normal andAneuploid Pregnancies," Am. J Hum.
`Genet. 61: 822-829.
`Bianchi, D.W. et al. (2001). "Longitudinal Fetal DNA Quantitation
`Studies in Maternal Cells and Plasma over a 24 Hour Period," Pro(cid:173)
`gram Nr: 2377 located at <http://www.faseb.org/genetics/ashgOO/
`f2377 .html> last visited on Mar. 27, 2001, one page.
`
`Bianchi, D.W. et al. (Jul. 2002). "Fetal Gender and Aneuploidy
`Detection Using Fetal Cells in Maternal Blood: Analysis ofNIFTY I
`Data," Prenatal Diagnosis 22:609-615.
`Bianchi, D.W. et al. (May 12-13, 2001). "Thoughts on the Origin of
`Fetal DNA in the Pregnant Woman," Abstract 3.4 In Chapter 3 "Clini(cid:173)
`cal Applications of Fetal DNA in Maternal Plasma," In Abstracts,
`12th Fetal Cell Workshop, Fetal Diagn. Ther. 16:450.
`Bianchi, D.W. et. al. (1996). "Male Fetal Progenitor Cells Persist in
`Maternal Blood for as Long as 27 Years Postpartum," Proc. Natl.
`Acad. Sci. USA 93:705-708.
`Blanchard, A.P. andL. Hood ( 1996). "Sequence to Array: Probing the
`Genome's Secrets," Nature Biotechnology 149:1649.
`Bradley, A.F. et al. ( 1996). "Recent Developments in Automatic DNA
`Sequencing," Pure &Applied Chemistry 68(10): 1907-1912.
`Brambati, B. (Sep. 7, 1994). "Prenatal Diagnosis by Isolating and
`Analyzing Fetal Nucleated Red Cells: Dream or Reality?" Annals
`New York Academy of Sciences 731:248-252.
`Brenner, S. et al. (2000). "Gene Expression Analysis by Massively
`Parallel Signature Sequencing (MPSS) on Microbead Arrays,"
`Nature Biotechnology 18:630-634.
`Broude, N. et al. (2001). "High-Level Multiplex DNA Amplifica(cid:173)
`tion," Antisense & Nucleic Acid Drug Development 11:327-332.
`Brown, E. L. et al. (1979). "Chemical Synthesis and Cloning of a
`Tyrosine tRNA Gene," Methods in Enzymology 68: 109-151.
`Bruch, J. F. et al. (1991). "Trophoblast-Like Cells Sorted From
`Peripheral Maternal Blood Using Flow Cytometry: A
`Multiparametric Study Involving Transmission Electron Microsopy
`and Fetal DNA Amplification," Prenatal Diagnosis 11 :787-798.
`Byrne, B.M. et al. (Jul. 1, 2003). "Fetal DNA Quantitation in Periph(cid:173)
`eral Blood Is Not Useful as a Marker of Disease Severity in Women
`with Preeclampsia," Hypertens Pregnancy 22(2):157-164.
`Cairns, P. et al. (Sep.2001 ). "Molecular Detection of Prostate Cancer
`in Urine by GSTPl Hypermethylation," Clin. Can. Res. 7:2727-
`2730.
`Camaschella, C. et al. (Jun. 1, 1990). "Prenatal Diagnosis of Fetal
`Hemoglobin Lepore-Boston Disease on Maternal Peripheral Blood,"
`Blood 75(11):2102-2106.
`Center for Medical Genetics. (1998-2003). "Human Insertion/Dele(cid:173)
`tion Polymorphisms," at <http://research.marshfieldclinicorg/ genet(cid:173)
`ics/>. last visited on Apr. 14, 2003, three pages.
`Chen, J. et al. (2000). "A Microsphere-BasedAssay for Multiplexed
`Single Nucleotide Polymorphism Analysis Using Single Base Chain
`Extension," Genome Research 10:549-557.
`Chen, X.Q. et al. (Sep. 1996). "Microsatellite Alterations in Plasma
`DNA of Small Cell Lung Cancer Patients," Nature Medicine
`2(9): 1033-1035.
`Cheung, V.G. et al. (Dec. 1996). "Whole Genome Amplification
`Using a Degenerate Oligonucleotide Primer Allows Hundreds of
`Genotypes to be Performed on Less Than One Nano gram of Genomic
`DNA," PNAS93:14676-14679.
`Chicurel, M. (Aug. 9, 2001). "Faster, Better, Cheaper Genotyping,"
`Nature 412:580-582.
`Cohen, J. (Oct. 2002). "Fetal Fortunes," Technology Review 54-61.
`Collins, F. S. and Mansoura, M. K. (2001). "The Human Genome
`Project: Revealing the Shared Inheritance of All Humankind," pre(cid:173)
`sented at 7th Biennial Symposium on Minorities, the Medically
`Underserved and Cancer 91(1):221-225.
`Cooper, D. N. and Krawczak, M. eds.(1993). "Human Gene Muta(cid:173)
`tion," In Duchenne Muscular Dystrophy, Alzheimer's Disease, Cystic
`Fibrosis, and Huntington's Disease. BIOS Scientific Publishers Lim(cid:173)
`ited. (Table of Contents only).
`Cox, R.A. et al. (Feb. 1977). "DNA Concentrations in Serum and
`Plasma," Clinical Chemistry 23(2):297.
`Cunningham, J. et al. (Oct. 1999). "Non-Invasive RNA-Based Deter(cid:173)
`mination of Fetal Rhesus D Type: A Prospective Study Based on 96
`Pregnancies," British J ofOb-Gyn 106:1023-1028.
`Cutler, D. J. et al.(2001 ). "High-Throughput Variation Detection and
`Genotyping Using Microarrays," Genome Research 11: 1913-1925.
`Davis, G.L. eta!. (Jan.-Feb.1973). "DetectionofCirculatingDNAby
`Counterimmuno-electrophoresis (CIE)," Arthritis and Rheumatism
`16(1):52-58.
`
`

`

`Case 1:20-cv-01644-RGA Document 1-2 Filed 12/03/20 Page 5 of 311 PageID #: 341
`
`US 7,727,720 B2
`Page 4
`
`Dean, F. B. et al. (2001 ). "Rapid Amplification of Plasmid and Phage
`DNA Using Phi29 DNA Polymerase and Multiple-Printed Rolling
`Circle Amplification," Genomic Research 11: 1095-99.
`Dean, F.B. et al. (Apr. 16, 2002). "Comprehensive Human Genome
`Amplification Using Multiple Displacement Amplification," PNAS
`99(8):5261-5266.
`Defrancesco, L. (1998). "The Next New Wave in Genome Analysis:
`Invaderâ„¢ Assays Developed by Third Wave Technologies, Inc.," The
`Scientist 12(21):16.
`Dhallan, R. et al. (Mar. 3, 2004). "Methods to Increase the Percentage
`of Free Fetal DNA Recovered From the Maternal Circulation," JAMA
`291(9): 1114-1119.
`Ding, C. et al. (Jul. 20, 2004). "MS Analysis of Single-Nucleotide
`Differences
`in Circulating Nucleic Acids: Application
`to
`Noninvasive Prenatal Diagnosis," PNAS 101(29)10762-10767.
`Douglas, G.W. et al. (Nov. 1959). "Trophoblast in the Circulating
`Blood During Pregnancy," American Journal of Obstetrics and
`Gynecology 78(5):960-973.
`Drabek, J. (2001). "A Commented Dictionary of Techniques for
`Genotyping," Electrophoresis 22:1024-1045.
`Durant, J. et al. (Jun. 26, 1999). "Drug-Resistance Genotyping in
`HIV-1 Therapy: The VIRADAPT Randomised Controlled Trial," The
`Lancet 353:2195-2199.
`Durant, J. et al. (Sep. 25, 1999). "Drug-Resistant Genotyping in
`HIV-1 Therapy," TheLancet354:1120-1122.
`Egholm, M. et al.
`(1992). "Peptide Nucleic Acids (PNA).
`Oligonucleotide Analogues with an Achiral Peptide Backbone," J
`Am. Chem. Soc. 114(5):1895-1897.
`El-Nagger, A.K. et al. (2001). "Genetic Heterogeneity in Saliva from
`Patients with ORal Squamous Carcinomas: Implications in Molecu(cid:173)
`lar Diagnosis and Screening," J Mo!. Diag. 3(4): 164-170.
`Emanuel, S.L. et al. (1993). "Amplification of Specific Gene Prod(cid:173)
`ucts from Human Serum," GATA 10(6):144-146.
`Erlich, H. A. ed. (1989). PCR Technology: Principals and Applica(cid:173)
`tions of DNA Amplification, Stockton Press. pp. ix-x. (Table of
`Contents only).
`Fan, S. et al. (Aug. 12, 1998). "Down-Regulation of BRCAl and
`BRCA2 in Human Ovarian Cancer Cells Exposed to Adriamycin and
`Ultraviolet Radiation," International Journal of Cancer 77(4):600-
`609.
`Farnia, A. et al. (1998). "Fetal Cells in Maternal Blood as a Second
`Non-Invasive Step for Fetal Down Syndrome Screening," Prenat.
`Diagn. 18:983-986.
`Field, J.K. et al. (Jun. 1, 1999). "Genetic Alterations in Bronchial
`Lavage as a Potential Marker for Individuals with a High Risk of
`Developing Lung Cancer," Cancer Research 59:2690-2695.
`Foreman, K. E. et al. (Jun. 1997). "In Situ Polymerase Chain Reac(cid:173)
`tion-Based Localization Studies Support Role of Human
`Herpesvirus-8 as the Cause of Two AIDS-related Neoplasms:
`Kaposi's Sarcoma and Body Cavity Lymphoma." J Clinical Inves.
`99(12):2971-2978.
`Fortina, P. et al. (2001). "DOP-PCR Amplification of Whole
`Genomic DNA and Microchip-Based Capillary Electrophoresis,"
`Methods Mo! Biol. 163:211-219.
`Fournie, G.J. et al. (1993). "Plasma DNA as Cell Death Marker in
`Elderly Patients," Gerontology 39:215-221.
`Fowke, K.R. et al. ( 1995). "Genetic Analysis of Human DNA Recov(cid:173)
`ered From Minute Amounts of Serum or Plasma," Journal of Immu(cid:173)
`nological Methods 180:45-51.
`Gadkar, V. et al. (Jan. 1, 2005). "Application of Phi29 DNA
`Polymerase Mediated Whole Genome Amplification on Single
`Spores of Arbuscular Mycorrhizal (AM) Fungi," FEMS Microbiol(cid:173)
`ogy Letters 242(1):65-71.
`Giinshirt-Ahlert, D. et al. (May 1992). "Magnetic Cell Sorting and the
`Transferrin Receptor as Potential Means of Prenatal Diagnosis from
`Materanl Blood," Am. J Obstet. Gynecol. 166:1350-1355.
`Gerhold, D. et al. ( 1999). "DNA Chips: Promising Toys have Become
`Powerful Tools," T/BS24:168-173.
`Green, A. et al. (1990). "Direct Single Stranded Sequencing from
`Agarose of Polymerase Chain Reaction Products," Nucleic Acids
`Res. 18(20):6163-6164.
`
`Grosch, S. et al. (2001). "A Rapid Screening Method for a Single
`Nucleotide Polymorphism (SNP) in the Human MOR Gene," Br. J
`Clin Pharmacol 52:711-714.
`Gusev, Y. et al. (Jul. 2001). "Technical Advance: Rolling Circle
`Amplification-A New Approach to Increase Sensitivity for
`Immunohistochemistry and Flow Cytometry," American Journal of
`Pathology 159( 1 ):63-69.
`Halm, S. et al. (May 12 -13, 2001). "An Examination of Fetal Cells,
`Free Fetal DNA and Fetal Cell Culture: The Basel Experience,"
`Abstract 3.2 In Chapter 3 "Clinical Applications of Fetal DNA in
`Maternal Plasma," In Abstracts, 12th Fetal Cell Workshop, Fetal
`Diagn. Ther. 16:449.
`Halm, S. et al. (Sep. 2002). "Prenatal Diagnosis Using Fetal Cells and
`Cell-Free Fetal DNA in Maternal Blood: What is Currently Fea(cid:173)
`sible?" Clinical Obstetrics and Gynecology 45(3):649-656.
`Harrington, J.J. et al. (1994). "Functional Domains within FEN-1
`RAD2 Define a Family of Structure-specific Endonucleases: Impli(cid:173)
`cations for Nucleotide Excision Repair," Gene and Development
`8:1344-1355.
`Hedenfalk, I. et al. (Feb. 22, 2001). "Gene-Expression Profiles in
`Hereditary Breast Cancer," New Engl. Jnl. Med. 344(8):539-548.
`Heinemann, J.A. et al. (Apr. 2000). "New Hypotheses on the Material
`Nature of Horizontally Mobile Genes," Annals New YorkAcademy of
`Sciences 906:169-186.
`Herzenberg, L.A. et al. (1979). "Fetal Cells in the Blood of Pregnant
`Women: Detection and Enrichment by Fluorescence-Activated Cell
`Sorting," Proc. Natl. Acad. Sci. USA 76(3):1453-1455.
`Hielm, S. et al. (Feb. 1998). "Genomic Analysis of Clostridium
`Botulinum Group II by Pulsed-Field Gel Electrophoresis," Applied
`and Environmental Microbiology 64(2):703-708.
`Hogervorst, F.B.L. et al. (1995). "Rapid Detection ofBRCAl Muta(cid:173)
`tions by the Protein Truncation Test," Nature Genetics 10:208-212.
`Holzgreve, W. et al. (2000). "Fetal Cells in Cervical Mucus and
`Maternal Blood," Bailliere's Clinical Obstetrics and Gynaecology
`14(4):709-722.
`Holzgreve, W. et al. (Jun. 2001). "Prenatal Diagnosis Using Fetal
`Cells and Free Fetal DNA in Maternal Blood," Clinical Perinatology
`28(2):353-365.
`Hosono, S. et al. (Apr. 14, 2003). "Unbiased Whole-Genome Ampli(cid:173)
`fication Directly From Clinical Samples," Genome Research
`13(5)954-964.
`Hsu, T. M. et al.
`(2001). "Genotyping Single-Nucleotide
`Polymorphisms by the Invader Assay with Dual-Color Fluorescence
`Polarization Detection," Clinical Chemistry 47(8): 1373-1377.
`Huber, M. et al. (2001 ). "Detection of Single Base Alterations in
`Genomic DNA by Solid Phase Polymerase Chain Reaction on
`Oligonucleotide Microarrays," Analytical Biochemistry 299:24-30.
`Hughes, G.R. et al. (Mar.-Apr. 1971). "The Release of DNA into
`Serum and Synovial Fluid," Arthritis and Rheumatology 14(2):259-
`266.
`Human Gene Mutation Database (HGMD). (Date Unknown).
`Located at <http:archive.uwcm.ac.uk/uwcm/mg/hgmdO.htrnl> last
`visited on Sep. 20, 2004. 3 pages total.
`Imamura, A. et al. (1996). "Short Communication: Prenatal Diagno(cid:173)
`sis of Adrenoleukodystrophy by Means of Mutation Analysis,"
`PreNatal Diagnosis 16:259-261.
`Innis, M.A. ed., (1990). PCR Protocols: A Guide to Methods and
`Applications. Academic Press, Inc. pp. v-x. (Table of Contents only).
`International Search Report mailed on Jul. 17, 2003, for PCT Patent
`Application No. PCT/US03/06376 filed on Feb. 28, 2003, four pages.
`International Search Report mailed on Jul. 20, 2004 for PCT patent
`application No. PCT/US03/27308 filed Aug. 29, 2003, eight pages.
`International Search Report mailed on Jun. 14, 2005 for PCT patent
`application No. PCT/US04/06337 filed Mar. 1, 2004, five pages.
`International Search Report mailed on Sep. 2, 2003, for PCT patent
`application No. PCT/US03/06198 filed on Feb. 28, 2003, nine pages.
`International Searh Report mailed on Jun. 14, 2005 for PCT patent
`application No. PCT/US04/06337 filed Mar. 1, 2004, five pages.
`James, P. et al. ( 1994). "Protein Identification in DNA Databases by
`Peptide Mass Fingerprinting," Protein Science 3:1347-1350.
`Kamm, R.C. et al. (1972). "Nucleic Acid Concentrations in Normal
`Human Plasma," Clinical Chemistry 18(6):519-522.
`
`

`

`Case 1:20-cv-01644-RGA Document 1-2 Filed 12/03/20 Page 6 of 311 PageID #: 342
`
`US 7,727,720 B2
`Page 5
`
`Isolation From Maternal
`Implications," Adv. Obstet.
`
`Kamm, R.C. et al. (1975). "Plasma Deoxyribonucleic Acid Concen(cid:173)
`trations ofWomen in Labor and Umbilical Cords," American Journal
`of Obstetrics and Gynecology 121(1):29-31.
`Kandpal, R.P. et al. (1990). "Selective Enrichment of a Large Size
`Genomic DNA Fragment by Affinity Capture: An Approach for
`Genome Mapping," Nucleic Acids Res. 18(7): 1789-1795.
`Kaneoka, H. et al. (1991). "Solid-Phase Direct DNA Sequencing of
`Allele-Specific Polymerase Chain Reaction-Amplified HLA-DR
`Genes," Biotechniques 10(1):30, 32 and 34 only.
`Kang, A. et al. ( 1999). "Fetal Cells in Maternal Blood: Their Role in
`Non-Invasive Prenatal Diagnosis and in the Etiology of Certain Dis(cid:173)
`eases," ("Fetale Zellen im miitterlichen Blut-ihre Bedeutung fiir
`eine nicht-invasive priinatale Diagnostik und bei der Atiotogie
`bestimmter Erkrankungen,") Schweiz Med. Wochenschr 129: 1470-
`1743. English Translation and original language article.
`Kawasaki, E. S. (1990). "Sample Preparation From Blood, Cells and
`Other Fluids," Chapter 18 In PCR Protocol: A Guide to Methods and
`Applications. Innis, M. A. et al., eds., Academic Press, Inc., pp.
`146-152.
`Kinzler, K. W. et al. (Aug. 9, 1991). "Indentification of FAP Locus
`Genes from Chromosome 5q21," Science 253:661-665.
`Kosel, S. et al. (May 8,2001 ). "Inter-Laboratory Comparison of DNA
`Preservation in Archival Paraffin-Embedded Human Brain Tissue
`from Participating Centres on Four Continents," Neurogenetics
`3(3):164-170.
`"Fetal Cell
`Kuo, P-L.
`(1999).
`Blood-Clinical and Biological
`Perinatal. 10(1):15-24.
`Kusaka, T. et al. (Oct. 2000). "Analysis ofK-ras Codon 12 Mutations
`and P53 Overexpression
`in Colorectal Nodule-Aggregating
`Tumors," Journal of Gastroenterology and Hepatology 15( 10) 1151-
`1157.
`Kwak, J.Y.H. et al. ( Sep. 7, 1994). "Biological Basis ofFetoplacental
`Antigenic Determinants in the Induction of the Antiphospholipid
`Antibody Syndrome and Recurrent Pregnancy Loss," Annals New
`York Academy of Sciences 731 :242-245.
`Kwok, P-Y. (2001). "Methods for Genotyping Single Nucleotide
`Polymorphisms," Annual Review ofGenomics and Human. Genetics
`2:235-258.
`Lagona, F. et al. (1998). "Multiple Testing in Fetal Gender Determi(cid:173)
`nation from Maternal Blood by Polymerase Chain Reaction," Human
`Genetics 102:687-690.
`Lagona, F. et al. (Apr. 2000). "Fetal DNA Analysis from Maternal
`Plasma and Nucleated Blood Cells," Annals New York Academy of
`Sciences 906:156-160.
`Lander, E. S. et al. (2001). "Initial Sequencing and Analysis of the
`Human Genome," Nature 409: 860-921.
`Lee, M.-S. et al. (1989). "Detection of Two Alternative bcr/abl
`mRNA Junctions and Minimal Residual Disease in Philadelphia
`Chromosome Positive Chronic Myelogenous Leukemia by
`Polymerase Chain Reaction," Blood 73(8):2165-2170.
`Lee, T. eta!. (Nov. 2002). "DownSyndromeandCell-FreeFetalDNA
`in Archived Maternal Serum," Am. J Obstet. Gynecol. 187:1217-
`1221.
`Leon, S.A. et al. (1977). "Free DNA in the Serum of Rheumatoid
`Arthritis Patients," Journal of Rheumatology 4(2): 139-143.
`Leon, S.A. et al. (Mar. 1977). "Free DNA in the Serum of Cancer
`Patients and the Effect of Therapy," Cancer Research 37:646-650.
`Li, J. et al. ( 1999). "Single Nucleotide Polymorphism Determination
`using Primer Extension and Time-of-Flight Mass Spectrometry,"
`Electrophoresis 20: 1258-1265.
`Liloglou, T. et al. (2001 ). "Cancer-Specific Genomic Instability in
`Bronchial Lavage: A Molecular Tool for Lung Cancer Detection,"
`Cancer Research 61:1624-1628.
`Lindblad-Toh, K. et al. (2000). "Loss of-Heterozygoisty Analysis of
`Small-Cell
`Lung
`Carcinomas Using
`Single-Nucleotide
`Polymorphism Arrays," Nature Biotechnology 18: 1001-1005.
`Livak, K.J. et al. (1995). "Oligonucleotides With Fluorescent Dyes at
`Opposite Ends Provide a Quenched Probe System Useful for Detect(cid:173)
`ing PCR Product and Nucleic Acid Hybridization," PCR Methods
`and Applications 4:357-362.
`
`Lo, Y.M. D. et al. (Sep. 7, 1994). "Strategies for the Detection of
`Autosomal Fetal DNA Sequence from Maternal Peripheral Blood,"
`Annals New York Academy of Sciences 731 :204-213.
`Lo, Y.M.D. (Apr. 2000). "Fetal DNA in Maternal Plasma," Annals of
`New York Academy of Sciences 906:141-147.
`Lo, Y.M.D. (Dec. 1994) "Non-Invasive Prenatal Diagnosis Using
`Fetal Cells in Maternal Blood," Journal of Clinical Pathology
`47(12): 1060-1065.
`Lo, Y.M.D. (1999). "Fetal RhD Genotyping From Maternal Plasma,"
`Annals of Medicine 31(5):308-312.
`Lo, Y.M.D. (1999). "Rapid Clearance of Fetal DNA from Maternal
`Plasma," Am. J Hum. Genet. 64:218-224.
`Lo, Y.M.D. (Dec. 2000). "Fetal DNA in Maternal Plasma: Biology
`and Diagnostic Applications," Clinical Chemistry 46(12): 1903-
`1906.
`Lo, Y.M.D. (Jan. 2003). "Fetal DNA in Maternal Plasma/Serum: The
`First 5 Years," Pediatric Research 53(1): 16-17.
`Lo, Y.M.D. (Jun.2001 ). "Fetal DNA in Maternal Plasma: Application
`to Non-Invasive Blood Group Genotyping of the Fetus," Transfus.
`Clin. Biol. 8(3):306-310.
`Lo, Y.M.D. (May 12-13, 2001). "Fetal DNA in Maternal Plasma,"
`Abstract 3.1 In Chapter 3 "Clinical Applications of Fetal DNA in
`Maternal Plasma," In Abstracts, 12th Fetal Cell Workshop, Fetal
`Diagn. Ther. 16:448-449.
`Lo, Y.M.D. (Sep. 7, 1994). "An Improved PCR-Based System for
`Prenatal Sex Determination from Maternal Peripheral Blood,"
`Annals New York Academy of Sciences 731:214-216.
`Lo, Y.M.D. (Sep. 7, 1994). "Prenatal Determination of Fetal Rhesus
`D Status by DNA Amplification of Peripheral Blood of Rhesus(cid:173)
`Negative Mothers," Annals New York Academy of Sciences 731 :229-
`236.
`Lo, Y.M.D. et al. (1994). "Detection of Fetal RhD Sequence From
`Peripheral BloodofSensitizedRhD-Negative Women," British Jour(cid:173)
`nal of Hematology 87:658-660.
`Lo, Y.M.D. et al. (1998). "Quantitative Anaylysis of Fetal DNA in
`Maternal Plasma and Serum: Implications for Noninvasive Prenatal
`Diagnosis," Am. J Hum. Genet. 62:768-775.
`Lo, Y.M.D. et al. (1999). "Increased Fetal DNA Concentrations in the
`Plasma of Pregnant Women Carrying Fetuses with Trisomy 21,"
`Clinical Chemistry 45(10): 1747-1751.
`Lo, Y.M.D. et al. (Aug. 16, 1997). "Presence of Fetal DNA in Mater(cid:173)
`nal Plasma and Serum," The Lancet 350:485-487.
`Lo, Y.M.D. et al. (Dec. 1, 1996). "Two-Way Cell Traffic Between
`Mother

This document is available on Docket Alarm but you must sign up to view it.


Or .

Accessing this document will incur an additional charge of $.

After purchase, you can access this document again without charge.

Accept $ Charge
throbber

Still Working On It

This document is taking longer than usual to download. This can happen if we need to contact the court directly to obtain the document and their servers are running slowly.

Give it another minute or two to complete, and then try the refresh button.

throbber

A few More Minutes ... Still Working

It can take up to 5 minutes for us to download a document if the court servers are running slowly.

Thank you for your continued patience.

This document could not be displayed.

We could not find this document within its docket. Please go back to the docket page and check the link. If that does not work, go back to the docket and refresh it to pull the newest information.

Your account does not support viewing this document.

You need a Paid Account to view this document. Click here to change your account type.

Your account does not support viewing this document.

Set your membership status to view this document.

With a Docket Alarm membership, you'll get a whole lot more, including:

  • Up-to-date information for this case.
  • Email alerts whenever there is an update.
  • Full text search for other cases.
  • Get email alerts whenever a new case matches your search.

Become a Member

One Moment Please

The filing “” is large (MB) and is being downloaded.

Please refresh this page in a few minutes to see if the filing has been downloaded. The filing will also be emailed to you when the download completes.

Your document is on its way!

If you do not receive the document in five minutes, contact support at support@docketalarm.com.

Sealed Document

We are unable to display this document, it may be under a court ordered seal.

If you have proper credentials to access the file, you may proceed directly to the court's system using your government issued username and password.


Access Government Site

We are redirecting you
to a mobile optimized page.





Document Unreadable or Corrupt

Refresh this Document
Go to the Docket

We are unable to display this document.

Refresh this Document
Go to the Docket