Steven J. M. Jones

2009
20	EE	Obi L. Griffith, Byron J. Gao, Mikhail Bilenky, Yuliya Prichyna, Martin Ester, Steven J. M. Jones: KiWi: A Scalable Subspace Clustering Algorithm for Gene Expression Analysis CoRR abs/0904.1931: (2009)
2008
19	EE	Anthony P. Fejes, Gordon Robertson, Mikhail Bilenky, Richard Varhol, Matthew N. Bainbridge, Steven J. M. Jones: FindPeaks 3.1: a tool for identifying areas of enrichment from massively parallel short-read sequencing technology. Bioinformatics 24(15): 1729-1730 (2008)
18	EE	Obi L. Griffith, Stephen Montgomery, Bridget Bernier, Bryan Chu, Katayoon Kasaian, Stein Aerts, Shaun Mahony, Monica C. Sleumer, Mikhail Bilenky, Maximilian Haeussler, Malachi Griffith, Steven M. Gallo, Belinda Giardine, Bart Hooghe, Peter Van Loo, Enrique Blanco, Amy Ticoll, Stuart Lithwick, Elodie Portales-Casamar, Ian J. Donaldson, Gordon Robertson, Claes Wadelius, Pieter J. De Bleser, Dominique Vlieghe, Marc S. Halfon, Wyeth W. Wasserman, Ross C. Hardison, Casey M. Bergman, Steven J. M. Jones: ORegAnno: an open-access community-driven resource for regulatory annotation. Nucleic Acids Research 36(Database-Issue): 107-113 (2008)
2007
17	EE	Matthew N. Bainbridge, René L. Warren, An He, Mikhail Bilenky, Gordon Robertson, Steven J. M. Jones: THOR: targeted high-throughput ortholog reconstructor. Bioinformatics 23(19): 2622-2624 (2007)
16	EE	René L. Warren, Granger G. Sutton, Steven J. M. Jones, Robert A. Holt: Assembling millions of short DNA sequences using SSAKE. Bioinformatics 23(4): 500-501 (2007)
2006
15	EE	Babu Sundaram, Barbara M. Chapman, Bernard Li, Mark Mayo, Asim S. Siddiqui, Steven J. M. Jones: Sun Grid Engine Package for OSCAR - A Google Summer Of Code 2005 Project. HPCS 2006: 41
14	EE	Byron J. Gao, Obi L. Griffith, Martin Ester, Steven J. M. Jones: Discovering significant OPSM subspace clusters in massive gene expression data. KDD 2006: 922-928
13	EE	Peter Ruzanov, Steven J. M. Jones: An interactive tool for visualization of relationships between gene expression profiles. BMC Bioinformatics 7: 193 (2006)
12	EE	Stephen Montgomery, Obi L. Griffith, Monica C. Sleumer, Casey M. Bergman, Misha Bilenky, Erin Pleasance, Y. Prychyna, X. Zhang, Steven J. M. Jones: ORegAnno: an open access database and curation system for literature-derived promoters, transcription factor binding sites and regulatory variation. Bioinformatics 22(5): 637-640 (2006)
11	EE	Yvonne Y. Li, Steven J. M. Jones, Artem Cherkasov: Selective Targeting of Indel-inferred Differences in Spatial Structures of Homologous Proteins. J. Bioinformatics and Computational Biology 4(2): 403-414 (2006)
10	EE	Gordon Robertson, Misha Bilenky, K. Lin, An He, W. Yuen, M. Dagpinar, Richard Varhol, Kevin Teague, Obi L. Griffith, X. Zhang, Y. Pan, Maik Hassel, Monica C. Sleumer, W. Pan, Erin Pleasance, M. Chuang, H. Hao, Yvonne Y. Li, Neil Robertson, C. Fjell, B. Li, Stephen Montgomery, Tamara Astakhova, Jianjun Zhou, Jörg Sander, Asim S. Siddiqui, Steven J. M. Jones: cisRED: a database system for genome-scale computational discovery of regulatory elements. Nucleic Acids Research 34(Database-Issue): 68-73 (2006)
2005
9	EE	Asim S. Siddiqui, Gordon Robertson, Misha Bilenky, Tamara Astakhova, Obi L. Griffith, Maik Hassel, Keven Lin, Stephen Montgomery, Mehrdad Oveisi, Erin Pleasance, Neil Robertson, Monica C. Sleumer, Kevin Teague, Richard Varhol, Maggie Zhang, Steven J. M. Jones: cis-Regulatory Element Prediction in Mammalian Genomes. CSB Workshops 2005: 203-206
8	EE	Jörg Sander, Raymond T. Ng, Monica C. Sleumer, Man Saint Yuen, Steven J. M. Jones: A methodology for analyzing SAGE libraries for cancer profiling. ACM Trans. Inf. Syst. 23(1): 35-60 (2005)
7	EE	Artem Cherkasov, Zheng Shi, Yvonne Y. Li, Steven J. M. Jones, Magid Fallahi, Geoffrey L. Hammond: 'Inductive' Charges on Atoms in Proteins: Comparative Docking with the Extended Steroid Benchmark Set and Discovery of a Novel SHBG Ligand. Journal of Chemical Information and Modeling 45(6): 1842-1853 (2005)
2004
6	EE	Artem Cherkasov, Shannan J. Ho Sui, Robert C. Brunham, Steven J. M. Jones: Structural characterization of genomes by large scale sequence-structure threading: application of reliability analysis in structural genomics. BMC Bioinformatics 5: 101 (2004)
5	EE	Artem Cherkasov, Steven J. M. Jones: Structural characterization of genomes by large scale sequence-structure threading. BMC Bioinformatics 5: 37 (2004)
4	EE	Artem Cherkasov, Steven J. M. Jones: An approach to large scale identification of non-obvious structural similarities between proteins. BMC Bioinformatics 5: 61 (2004)
2003
3	EE	Scott D. Zuyderduyn, Steven J. M. Jones: A knowledge discovery object model API for Java. BMC Bioinformatics 4: 51 (2003)
2002
2		Sheldon J. McKay, Steven J. M. Jones: AcePrimer: automation of PCR primer design based on gene structure. Bioinformatics 18(11): 1538-1539 (2002)
1		S. R. Ness, W. Terpstra, Martin Krzywinski, Marco A. Marra, Steven J. M. Jones: Assembly of fingerprint contigs: parallelized FPC. Bioinformatics 18(3): 484-485 (2002)

Coauthor Index

1	Stein Aerts	[18]
2	Tamara Astakhova	[9] [10]
3	Matthew N. Bainbridge	[17] [19]
4	Casey M. Bergman	[12] [18]
5	Bridget Bernier	[18]
6	Mikhail Bilenky	[17] [18] [19] [20]
7	Misha Bilenky	[9] [10] [12]
8	Enrique Blanco	[18]
9	Pieter J. De Bleser	[18]
10	Robert C. Brunham	[6]
11	Barbara M. Chapman	[15]
12	Artem Cherkasov	[4] [5] [6] [7] [11]
13	Bryan Chu	[18]
14	M. Chuang	[10]
15	M. Dagpinar	[10]
16	Ian J. Donaldson	[18]
17	Martin Ester	[14] [20]
18	Magid Fallahi	[7]
19	Anthony P. Fejes	[19]
20	C. Fjell	[10]
21	Steven M. Gallo	[18]
22	Byron J. Gao	[14] [20]
23	Belinda Giardine	[18]
24	Malachi Griffith	[18]
25	Obi L. Griffith	[9] [10] [12] [14] [18] [20]
26	Maximilian Haeussler	[18]
27	Marc S. Halfon	[18]
28	Geoffrey L. Hammond	[7]
29	H. Hao	[10]
30	Ross C. Hardison	[18]
31	Maik Hassel	[9] [10]
32	An He	[10] [17]
33	Robert A. Holt	[16]
34	Bart Hooghe	[18]
35	Katayoon Kasaian	[18]
36	Martin Krzywinski	[1]
37	B. Li	[10]
38	Bernard Li	[15]
39	Yvonne Y. Li	[7] [10] [11]
40	K. Lin	[10]
41	Keven Lin	[9]
42	Stuart Lithwick	[18]
43	Peter Van Loo	[18]
44	Shaun Mahony	[18]
45	Marco A. Marra	[1]
46	Mark Mayo	[15]
47	Sheldon J. McKay	[2]
48	Stephen Montgomery	[9] [10] [12] [18]
49	S. R. Ness	[1]
50	Raymond T. Ng	[8]
51	Mehrdad Oveisi	[9]
52	W. Pan	[10]
53	Y. Pan	[10]
54	Erin Pleasance	[9] [10] [12]
55	Elodie Portales-Casamar	[18]
56	Yuliya Prichyna	[20]
57	Y. Prychyna	[12]
58	Gordon Robertson	[9] [10] [17] [18] [19]
59	Neil Robertson	[9] [10]
60	Peter Ruzanov	[13]
61	Jörg Sander	[8] [10]
62	Zheng Shi	[7]
63	Asim S. Siddiqui	[9] [10] [15]
64	Monica C. Sleumer	[8] [9] [10] [12] [18]
65	Shannan J. Ho Sui	[6]
66	Babu Sundaram	[15]
67	Granger G. Sutton	[16]
68	Kevin Teague	[9] [10]
69	W. Terpstra	[1]
70	Amy Ticoll	[18]
71	Richard Varhol	[9] [10] [19]
72	Dominique Vlieghe	[18]
73	Claes Wadelius	[18]
74	René L. Warren	[16] [17]
75	Wyeth W. Wasserman	[18]
76	Man Saint Yuen	[8]
77	W. Yuen	[10]
78	Maggie Zhang	[9]
79	X. Zhang	[10] [12]
80	Jianjun Zhou	[10]
81	Scott D. Zuyderduyn	[3]

Colors in the list of coauthors