-
N.
Peled, G. Palmer, F. Hirsch, M.W. Wynes, M. Ilouze,
M. Varella-Garcia, L. Soussan-Gutman, G.A. Otto,
P.J. Stephens, J. Ross, M.T. Cronin, D. Lipson, and
V.A. Miller, " Next-Generation
Sequencing Identifies and Immunohistochemistry
Confirms a Novel Crizotinib-Sensitive ALK
Rearrangement in a Patient with Metastatic
Non–Small-Cell Lung Cancer" , Journal
of
Thoracic Oncology, 7(9):e14–e16, 2012.
-
D.
Lipson*, M. Capelletti*, R. Yelensky, G. Otto, A.
Parker, M. Jarosz, J.A. Curran, S.
Balasubramanian, T. Bloom, K.W. Brennan, A.
Donahue, S.R. Downing, G.M. Frampton, L. Garcia,
F. Juhn, K.C. Mitchell, E. White, J. White, Z.
Zwirko, T. Peretz, H. Nechushtan, L.
Soussan-Gutman, J. Kim, H. Sasaki, H.R. Kim, S.
Park, D. Ercan, C.E. Sheehan, J.S. Ross, M.T.
Cronin, P.A. Jänne and P.J. Stephens, "Identification of New
ALK and RET Gene Fusions from Colorectal and
Lung Cancer Biopsies" , Nature
Medicine, 18, 382–384, 2012.
-
J.F. Thompson*, J.G. Reifenberger*, E. Giladi, K.
Kerouac, J. Gill, E. Hansen, A. Kahvejian, P.
Kapranov, T. Knope, D. Lipson, K.E. Steinmann and P.M.
Milos, " Single-Step
Capture and Sequencing of Natural DNA for Detection
of BRCA1 Mutations" , Genome
Research, 22:340-345, 2012.
-
D.T.
Ting, D. Lipson, S. Paul, B.W. Brannigan, S.
Akhavanfard, E.J. Coffman, G. Contino, V. Deshpande,
A.J. Iafrate, S. Letovsky, M.N. Rivera, N. Bardeesy,
S. Maheswaran, D.A. Haber, " Aberrant Overexpression
of Satellite Repeats in Pancreatic and Other
Epithelial Cancers" , Science,
331(6017):593-596, 2011.
-
P.
Kapranov, F. Ozsolak , S.W. Kim, S. Foissac, D.
Lipson, C. Hart, S. Roels, C. Borel, S.E.
Antonarakis, A.P. Monaghan, B. John, P.M. Milos, " New class of
gene-termini-associated human RNAs suggests a
novel RNA copying mechanism" , Nature,
466(7306):642-6, 2010.
Reviewed by: M. Swami, "Small RNAs: A novel class",
Nature
Reviews Genetics 11(9):594, 2010.
-
E.
Giladi, J. Healy, G. Myers, C. Hart, P. Kapranov, D.
Lipson, S. Roels, E. Thayer, S. Letovsky, " Error tolerant indexing
and alignment of short reads with covering
template families" , J.
Computational Biology, 17(10):1279-1293,
2010.
-
C. Hart,
D. Lipson, F. Ozsolak, T. Raz, K. Steinmann, J.F.
Thompson, P.M. Milos, " Single
Molecule Tools: Fluorescence Based Approaches "
, Methods
in Enzymology, 472:407-430, 2010.
-
Y.
Buganim, I. Goldstein, D. Lipson, M. Milyavsky, S.
Polak-Charcon, C. Mardoukh, H. Solomon, E. Kalo, S.
Madar, R. Brosh, M. Perelman, R. Navon, N.
Goldfinger, I. Barshack, Z. Yakhini, V. Rotter, " A Novel Translocation
Breakpoint within the BPTF Gene Is Associated with
a Pre-Malignant Phenotype" , PLoS
ONE, 5(3): e9657, 2010.
-
D.
Lipson, T. Raz, A. Kieu, D.R. Jones, E. Giladi, E.
Thayer, J.F. Thompson, S. Letovsky, P.M. Milos, M.
Causey, "Quantification of
the Yeast Transcriptome by Single-molecule
Sequencing" , Nature
Biotechnology, 27(7):652-8, 2009.
-
J.
Bowers, J. Mitchell, E. Beer, P.R. Buzby, M. Causey,
J.W. Efcavitch, M. Jarosz, E. Krzymanska-Olejnik, L.
Kung, D. Lipson, G.M. Lowman, S. Marappan, P.
McInerney, A. Platt, A. Roy, S.M. Siddiqi, K.
Steinmann, J.F. Thompson, "Virtual
terminator nucleotides for next-generation DNA
sequencing" , Nature
Methods, 6, 593-595 (2009).
-
Margaret
Taub, Doron Lipson and Terence P. Speed, "Methods for Allocating
Ambiguous Short-reads", Communications
in Information and Systems, 10(2):69-82,
2010.
-
Eran
Eden, Roy Navon, Israel Steinfeld, Doron Lipson and
Zohar Yakhini, "GOrilla:
a Tool for Discovery and Visualization of Enriched
GO Terms in Ranked Gene Lists", BMC
Bioinformatics, 10(48) 2009.
-
S.
Farkash-Amar, D. Lipson, A. Polten, A. Goren, C.
Helmstetter, Z. Yakhini and I. Simon, "Global Organization of
Replication Time Zones of the Mouse Genome", Genome Research,
18(10):1562-70, 2008.
-
Amir
Ben-Dor, Doron Lipson, Anya Tsalenko, Mark Reimers,
Lars O. Baumbusch, Michael T. Barrett, John N.
Weinstein, Anne-Lise Borresen-Dale, Zohar Yakhini, "Framework for
Identifying Common Aberrations in DNA Copy Number
Data". Proceedings of RECOMB '07,
LNCS
4453, 122-136, Springer, 2007.
-
Eran Eden, Doron Lipson,
Sivan Yogev, Zohar Yakhini. "Discovering
Motifs in Ranked Lists of DNA", PLoS
Computational Biology, 3(3):e39, 2007.
-
E. Dehan,
A. Ben-Dor, W. Liao, D. Lipson, H. Frimer, S.
Rienstein, D. Simansky, M. Krupsky, P. Yaron, E.
Friedman, G. Rechavi, M. Perlman, A.
Aviram-Goldring, S. Izraeli, M. Bittner, Z. Yakhini,
N. Kaminski, "Chromosomal
aberrations and gene expression profiles in
non-small cell lung cancer", Lung
Cancer, 56(2):175-184, 2007.
-
Doron
Lipson, Zohar Yakhini, Yonatan Aumann, "Optimization of Probe
Coverage for High-Resolution Oligonucleotide aCGH".
Bioinformatics
23(2):e77-e83, 2007.
-
Ilya
Baskin, Stav Zaitsev, Doron Lipson, Rachel Gilad,
Kinneret Keren, Gidi Ben-Yoseph, Uri Sivan, "A Molecular Shift
Register and its Utilization as an Autonomous DNA
Synthesizer". Physical
Review Letters 97, 208103, 2006.
-
Doron
Lipson, Yonatan Aumann, Amir Ben-Dor, Nathan Linial,
Zohar Yakhini, "Efficient
Calculation of Interval Scores for DNA Copy Number
Data Analysis". Proceedings of RECOMB
'05, LNCS
3500, p. 83, Springer-Verlag, 2005.
Also in Journal
of Computational Biology, Vol. 13, No. 2:
215-228, 2006.
-
Michael
T. Barrett, Alicia Scheffer, Amir Ben-Dor, Nick
Sampas, Doron Lipson, Robert Kincaid, Peter Tsang,
Bo Curry, Kristin Baird, Paul S. Meltzer, Zohar
Yakhini, Laurakay Bruhn, Stephen Laderman, "Comparative Genomic
Hybridization using Oligonucleotide Microarrays
and Total Genomic DNA", PNAS,
Vol. 101, No. 51, 21 December 2004, pp. 17765-17770.
-
Doron
Lipson, Amir Ben-Dor, Elinor Dehan, Zohar Yakhini
(2004) "Joint Analysis of
DNA Copy Numbers and Gene Expression Levels",
Proceedings of WABI
2004, LNCS
3240, p. 135, Springer-Verlag, 2004.
-
Doron
Lipson, Peter Web, Zohar Yakhini (2002) "Designing Specific
Oligonucleotide Probes for the Entire S.
cerevisiae Transcriptome", Proceedings of WABI 2002, LNCS
2452, pp. 491-505, Springer-Verlag,
2002.
-
Brian F.
Volkman, Doron Lipson, David E Wemmer, Dorothee Kern
(2001) "Two-State Allosteric
Behavior in a Single-Domain Signaling Protein",
Science
Vol. 291, 23 March 2001, pp. 2429-2433.
Reviewed in: Matthias Buck and Michael K. Rosen
(2001), "Flipping a Switch", Science
Vol. 291, pp. 2329-2330.
-
N.J.
Turton, D.J. Judah, J. Riley, R. Davies, D. Lipson,
J.A. Styles, A.G. Smith, T.W. Gant, "Gene expression and
amplification in breast carcinoma cells with
intrinsic and acquired doxorubicin resistance",
Oncogene,
March 2001, Vol. 20, No. 11 pp.1300-1306.
-
Yoav Soen, Netta Cohen,
Doron Lipson, and Erez Braun (1999), "Emergence of
spontaneous rhythm disorders in self-assembled
networks of heart cells", Physical
Review
Letters, Vol. 82, Num. 17 , 26
April 1999, pp. 3556-3559.
Reviewed by the American
Institute
of Physics.
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