Lior Pachter

	2009
34		Radu Mihaescu, Dan Levy, Lior Pachter: Why Neighbor-Joining Works. Algorithmica 54(1): 1-24 (2009)
33		Cole Trapnell, Lior Pachter, Steven L. Salzberg: TopHat: discovering splice junctions with RNA-Seq. Bioinformatics 25(9): 1105-1111 (2009)
32		Jason Morton, Lior Pachter, Anne Shiu, Bernd Sturmfels, Oliver Wienand: Convex Rank Tests and Semigraphoids. SIAM J. Discrete Math. 23(3): 1117-1134 (2009)
	2008
31		Kord Eickmeyer, Peter Huggins, Lior Pachter, Ruriko Yoshida: On the optimality of the neighbor-joining algorithm. Algorithms for Molecular Biology 3: (2008)
30		Rahul Satija, Lior Pachter, Jotun Hein: Combining statistical alignment and phylogenetic footprinting to detect regulatory elements. Bioinformatics 24(10): 1236-1242 (2008)
29		Robert K. Bradley, Lior Pachter, Ian Holmes: Specific alignment of structured RNA: stochastic grammars and sequence annealing. Bioinformatics 24(23): 2677-2683 (2008)
	2007
28		Ariel S. Schwartz, Lior Pachter: Multiple alignment by sequence annealing. Bioinformatics 23(2): 24-29 (2007)
	2006
27		Jason Morton, Lior Pachter, Anne Shiu, Bernd Sturmfels, Oliver Wienand: Geometry of rank tests. Probabilistic Graphical Models 2006: 207-214
26		Sagi Snir, Lior Pachter: Phylogenetic Profiling of Insertions and Deletions in Vertebrate Genomes. RECOMB 2006: 265-280
25		Radu Mihaescu, Dan Levy, Lior Pachter: Why neighbor-joining works CoRR abs/cs/0602041: (2006)
	2005
24		Sourav Chatterji, Lior Pachter: Large Multiple Organism Gene Finding by Collapsed Gibbs Sampling. Journal of Computational Biology 12(6): 599-608 (2005)
	2004
23		Sourav Chatterji, Lior Pachter: Multiple organism gene finding by collapsed gibbs sampling. RECOMB 2004: 187-193
22		Lior Pachter, David E Speyer: Reconstructing trees from subtree weights. Appl. Math. Lett. 17(6): 615-621 (2004)
21		Jon D. McAuliffe, Lior Pachter, Michael I. Jordan: Multiple-sequence functional annotation and the generalized hidden Markov phylogeny. Bioinformatics 20(12): 1850-1860 (2004)
20		Kelly A. Frazer, Lior Pachter, Alexander Poliakov, Edward M. Rubin, Inna Dubchak: VISTA: computational tools for comparative genomics. Nucleic Acids Research 32(Web-Server-Issue): 273-279 (2004)
	2003
19		Simon Cawley, Lior Pachter: HMM sampling and applications to gene finding and alternative splicing. ECCB 2003: 36-41
18		Serafim Batzoglou, Lior Pachter: Gene Regulation - Session Introduction. Pacific Symposium on Biocomputing 2003: 3-4
17		Fumei Lam, Marina Alexandersson, Lior Pachter: Picking Alignments from (Steiner) Trees. Journal of Computational Biology 10(3/4): 509-520 (2003)
16		Simon Cawley, Lior Pachter, Marina Alexandersson: SLAM web server for comparative gene finding and alignment. Nucleic Acids Research 31(13): 3507-3509 (2003)
15		Nicolas Bray, Lior Pachter: MAVID multiple alignment server. Nucleic Acids Research 31(13): 3525-3526 (2003)
14		Fumei Lam, Lior Pachter: Forcing numbers of stop signs. Theor. Comput. Sci. 2-3(303): 409-416 (2003)
	2002
13		Inna Dubchak, Lior Pachter, Liping Wei: Genome-Wide Analysis and Comparative Genomics - Session Introduction. Pacific Symposium on Biocomputing 2002: 112-114
12		Lior Pachter, Fumei Lam: Picking alignments from (steiner) trees. RECOMB 2002: 246-253
11		Inna Dubchak, Lior Pachter: The computational challenges of applying comparative-based computational methods to whole genomes. Briefings in Bioinformatics 3(1): 18-22 (2002)
10		Lior Pachter, Marina Alexandersson, Simon Cawley: Applications of Generalized Pair Hidden Markov Models to Alignment and Gene Finding Problems. Journal of Computational Biology 9(2): 389-399 (2002)
	2001
9		Lior Pachter, Marina Alexandersson, Simon Cawley: Applications of generalized pair hidden Markov models to alignment and gene finding problems. RECOMB 2001: 241-248
	2000
8		Serafim Batzoglou, Lior Pachter, Jill P. Mesirov, Bonnie Berger, Eric S. Lander: Human and mouse gene structure: comparative analysis and application to exon prediction. RECOMB 2000: 46-53
7		Chris Mayor, Michael Brudno, Jody R. Schwartz, Alexander Poliakov, Edward M. Rubin, Kelly A. Frazer, Lior Pachter, Inna Dubchak: VISTA : visualizing global DNA sequence alignments of arbitrary length. Bioinformatics 16(11): 1046-1047 (2000)
	1999
6		Lior Pachter, Serafim Batzoglou, Valentin I. Spitkovsky, William S. Beebee, Eric S. Lander, Bonnie Berger, Daniel J. Kleitman: A dictionary based approach for gene annotation. RECOMB 1999: 285-294
5		Lior Pachter, Serafim Batzoglou, Valentin I. Spitkovsky, E. Banks, Eric S. Lander, Daniel J. Kleitman, Bonnie Berger: A Dictionary-Based Approach for Gene Annotation. Journal of Computational Biology 6(3/4): (1999)
	1998
4		Daniel J. Kleitman, Lior Pachter: Finding Convex Sets Among Points in the Plane. Discrete & Computational Geometry 19(3): 405-410 (1998)
3		Lior Pachter, Peter Kim: Forcing matchings on square grids. Discrete Mathematics 190(1-3): 287-294 (1998)
	1997
2		Lior Pachter: Constructing Status Injective Graphs. Discrete Applied Mathematics 80(1): 107-113 (1997)
1		Lior Pachter: Combinatorial Approaches and Conjectures for 2-Divisibility Problems Concerning Domino Tilings of Polyominoes. Electr. J. Comb. 4(1): (1997)

Coauthor Index

1	Marina Alexandersson	[9] [10] [16] [17]
2	E. Banks	[5]
3	Serafim Batzoglou	[5] [6] [8] [18]
4	William S. Beebee	[6]
5	Bonnie Berger	[5] [6] [8]
6	Robert K. Bradley	[29]
7	Nicolas Bray	[15]
8	Michael Brudno	[7]
9	Simon Cawley	[9] [10] [16] [19]
10	Sourav Chatterji	[23] [24]
11	Inna Dubchak	[7] [11] [13] [20]
12	Kord Eickmeyer	[31]
13	Kelly A. Frazer	[7] [20]
14	Jotun Hein	[30]
15	Ian Holmes	[29]
16	Peter Huggins	[31]
17	Michael I. Jordan	[21]
18	Peter Kim	[3]
19	Daniel J. Kleitman	[4] [5] [6]
20	Fumei Lam	[12] [14] [17]
21	Eric S. Lander	[5] [6] [8]
22	Dan Levy	[25] [34]
23	Chris Mayor	[7]
24	Jon D. McAuliffe	[21]
25	Jill P. Mesirov	[8]
26	Radu Mihaescu	[25] [34]
27	Jason Morton	[27] [32]
28	Alexander Poliakov	[7] [20]
29	Edward M. Rubin	[7] [20]
30	Steven Salzberg (Steven L. Salzberg)	[33]
31	Rahul Satija	[30]
32	Ariel S. Schwartz	[28]
33	Jody R. Schwartz	[7]
34	Anne Shiu	[27] [32]
35	Sagi Snir	[26]
36	David E Speyer	[22]
37	Valentin I. Spitkovsky	[5] [6]
38	Bernd Sturmfels	[27] [32]
39	Cole Trapnell	[33]
40	Liping Wei	[13]
41	Oliver Wienand	[27] [32]
42	Ruriko Yoshida	[31]

Colors in the list of coauthors