Gary D. Stormo

2008
44	EE	Jiajian Liu, Gary D. Stormo: Context-dependent DNA recognition code for C2H2 zinc-finger transcription factors. Bioinformatics 24(17): 1850-1857 (2008)
2007
43	EE	Martha L. Bulyk, Alexander J. Hartemink, Ernest Fraenkel, Gary D. Stormo: Session Introduction. Pacific Symposium on Biocomputing 2007: 470-471
42	EE	Xing Xu, Yongmei Ji, Gary D. Stormo: RNA Sampler: a new sampling based algorithm for common RNA secondary structure prediction and structural alignment. Bioinformatics 23(15): 1883-1891 (2007)
41	EE	Yiyong Zhou, Corentin Cras-Méneur, Mitsuru Ohsugi, Gary D. Stormo, M. Alan Permutt: A global approach to identify differentially expressed genes in cDNA (two-color) microarray experiments. Bioinformatics 23(16): 2073-2079 (2007)
40	EE	Li-Wei Chang, Burr R. Fontaine, Gary D. Stormo, Rakesh Nagarajan: PAP: a comprehensive workbench for mammalian transcriptional regulatory sequence analysis. Nucleic Acids Research 35(Web-Server-Issue): 238-244 (2007)
2006
39	EE	Kenzie D. MacIsaac, Ting Wang, D. Benjamin Gordon, David K. Gifford, Gary D. Stormo, Ernest Fraenkel: An improved map of conserved regulatory sites for Saccharomyces cerevisiae. BMC Bioinformatics 7: 113 (2006)
38	EE	Ritesh Agrawal, Gary D. Stormo: Using mRNAs lengths to accurately predict the alternatively spliced gene products in Caenorhabditis elegans. Bioinformatics 22(10): 1239-1244 (2006)
2005
37	EE	Jiajian Liu, Gary D. Stormo: Quantitative analysis of EGR proteins binding to DNA: assessing additivity in both the binding site and the protein. BMC Bioinformatics 6: 176 (2005)
36	EE	Jin Billy Li, Miao Zhang, Susan K. Dutcher, Gary D. Stormo: Procom: a web-based tool to compare multiple eukaryotic proteomes. Bioinformatics 21(8): 1693-1694 (2005)
35	EE	Jakob Hull Havgaard, Rune B. Lyngsø, Gary D. Stormo, Jan Gorodkin: Pairwise local structural alignment of RNA sequences with sequence similarity less than 40%. Bioinformatics 21(9): 1815-1824 (2005)
34	EE	Christopher T. Workman, Yutong Yin, David L. Corcoran, Trey Ideker, Gary D. Stormo, Panayiotis V. Benos: enoLOGOS: a versatile web tool for energy normalized sequence logos. Nucleic Acids Research 33(Web-Server-Issue): 389-392 (2005)
2004
33		Jianhua Ruan, Gary D. Stormo, Weixiong Zhang: An Iterated loop matching approach to the prediction of RNA secondary structures with pseudoknots. Bioinformatics 20(1): 58-66 (2004)
32	EE	Yongmei Ji, Xing Xu, Gary D. Stormo: A graph theoretical approach for predicting common RNA secondary structure motifs including pseudoknots in unaligned sequences. Bioinformatics 20(10): 1603-1611 (2004)
31		Jianhua Ruan, Gary D. Stormo, Weixiong Zhang: ILM: a web server for predicting RNA secondary structures with pseudoknots. Nucleic Acids Research 32(Web-Server-Issue): 146-149 (2004)
2003
30	EE	Jianhua Ruan, Gary D. Stormo, Weixiong Zhang: An Iterative Loop Matching Approach to the Prediction of RNA Secondary Stru. CSB 2003: 519-520
29	EE	Richard Souvenir, Jeremy Buhler, Gary D. Stormo, Weixiong Zhang: Selecting Degenerate Multiplex PCR Primers. WABI 2003: 512-526
28		Ting Wang, Gary D. Stormo: Combining phylogenetic data with co-regulated genes to identify regulatory motifs. Bioinformatics 19(18): 2369-2380 (2003)
2002
27		Gary D. Stormo: Specificity of Protein-DNA Interactions. Gene Regulations and Metabolism 2002: 87-101
26	EE	D. Guhathakurta, L. A. Schriefer, M. C. Hresko, R. H. Waterston, Gary D. Stormo: Identifying Muscle Regulatory Elements and Genes in the Nematode Caenorhabditis Elegans. Pacific Symposium on Biocomputing 2002: 425-436
2001
25	EE	Panayiotis V. Benos, Alan S. Lapedes, D. S. Fields, Gary D. Stormo: SAMIE: Statistical Algorithm for Modeling Interaction Energies. Pacific Symposium on Biocomputing 2001: 115-126
24		Mark Borodovsky, Eugene V. Koonin, Chris Burge, James W. Fickett, John Logsdon, Andrej Sali, Gary D. Stormo, Igor B. Zhulin: The Third Georgia Tech-Emory International Conference on Bioinformatics: In Silico Biology; Bioinformatics After Human Genome (November 15-18, 2001, Atlanta, Georgia, USA). Bioinformatics 17(10): 859-861 (2001)
23		Fugen Li, Gary D. Stormo: Selection of optimal DNA oligos for gene expression arrays. Bioinformatics 17(11): 1067-1076 (2001)
22		Debraj Guha Thakurta, Gary D. Stormo: Identifying target sites for cooperatively binding factors. Bioinformatics 17(7): 608-621 (2001)
2000
21		Fugen Li, Gary D. Stormo: Selecting Optimum DNA Oligos for Microarrays. BIBE 2000: 200-207
20		Gary D. Stormo: DNA binding sites: representation and discovery. Bioinformatics 16(1): 16-23 (2000)
19		Viatcheslav R. Akmaev, Scott T. Kelley, Gary D. Stormo: Phylogenetically enhanced statistical tools for RNA structure prediction. Bioinformatics 16(6): 501-512 (2000)
1999
18		Viatcheslav R. Akmaev, Scott T. Kelley, Gary D. Stormo: A Phylogenetic Approach to RNA Structure Prediction. ISMB 1999: 10-17
17	EE	D. C. Weaver, Christopher T. Workman, Gary D. Stormo: Modeling Regulatory Networks with Weight Matrices. Pacific Symposium on Biocomputing 1999: 112-123
16		G. Z. Hertz, Gary D. Stormo: Identifying DNA and protein patterns with statistically significant alignments of multiple sequences. Bioinformatics 15(7): 563-577 (1999)
1998
15		Samuel Levy, L. Compagnoni, Eugene W. Myers, Gary D. Stormo: Xlandscape: the graphical display of word frequencies in sequences. Bioinformatics 14(1): 74-80 (1998)
14		Jack E. Tabaska, Robert B. Cary, Harold N. Gabow, Gary D. Stormo: An RNA folding method capable of identifying pseudoknots and base triples. Bioinformatics 14(8): 691-699 (1998)
1997
13		Jan Gorodkin, Laurie J. Heyer, Gary D. Stormo: Finding Common Sequence and Structure Motifs in a Set of RNA Sequences. ISMB 1997: 120-123
12		Jack E. Tabaska, Gary D. Stormo: Automated Alignment of RNA Sequences to Pseudoknotted Structures. ISMB 1997: 311-318
11		Samuel Levy, Gary D. Stormo: DNA Sequence Classification Using DAWGs. Structures in Logic and Computer Science 1997: 339-352
10		Q. K. Chen, G. Z. Hertz, Gary D. Stormo: PromFD 1.0: a computer program that predicts eukaryotic pol II promoters using strings and IMD matrices. Computer Applications in the Biosciences 13(1): 29-35 (1997)
9		Jan Gorodkin, Laurie J. Heyer, Søren Brunak, Gary D. Stormo: Displaying the information contents of structural RNA alignments: the structure logos. Computer Applications in the Biosciences 13(6): 583-586 (1997)
1995
8		Robert B. Cary, Gary D. Stormo: Graph-Theoretic Approach to RNA Modeling Using Comparative Data. ISMB 1995: 75-80
7		Q. K. Chen, G. Z. Hertz, Gary D. Stormo: MATRIX SEARCH 1.0: a computer program that scans DNA sequences for transcriptional elements using a database of weight matrices. Computer Applications in the Biosciences 11(5): 563-566 (1995)
1994
6		John M. Heumann, Alan S. Lapedes, Gary D. Stormo: Neural Networks for Determining Protein Specificity and Multiple Alignment of Binding Sites. ISMB 1994: 188-194
5		Gary D. Stormo, David Haussler: Optimally Parsing a Sequence into Different Classes Based on Multiple Types of Evidence. ISMB 1994: 369-375
1993
4		D. S. Prestridge, Gary D. Stormo: SIGNAL SCAN 3.0: new database and program features. Computer Applications in the Biosciences 9(1): 113-115 (1993)
1990
3		G. Z. Hertz, G. W. Hartzell III, Gary D. Stormo: Identification of consensus patterns in unaligned DNA sequences known to be functionally related. Computer Applications in the Biosciences 6(2): 81-92 (1990)
1986
2		B. Clift, David Haussler, Ross M. McConnell, Thomas D. Schneider, Gary D. Stormo: Sequence landscapes. Nucleic Acids Research 14(1): 141-158 (1986)
1984
1		Thomas D. Schneider, Gary D. Stormo, M. A. Yarus, L. Gold: Delila system tools. Nucleic Acids Research 12(1): 129-140 (1984)

Coauthor Index

1	Ritesh Agrawal	[38]
2	Viatcheslav R. Akmaev	[18] [19]
3	Panayiotis V. Benos	[25] [34]
4	Mark Borodovsky	[24]
5	Søren Brunak	[9]
6	Jeremy Buhler (Jeremy D. Buhler)	[29]
7	Martha L. Bulyk	[43]
8	Chris Burge	[24]
9	Robert B. Cary	[8] [14]
10	Li-Wei Chang	[40]
11	Q. K. Chen	[7] [10]
12	B. Clift	[2]
13	L. Compagnoni	[15]
14	David L. Corcoran	[34]
15	Corentin Cras-Méneur	[41]
16	Susan K. Dutcher	[36]
17	James W. Fickett	[24]
18	D. S. Fields	[25]
19	Burr R. Fontaine	[40]
20	Ernest Fraenkel	[39] [43]
21	Harold N. Gabow	[14]
22	David K. Gifford	[39]
23	L. Gold	[1]
24	D. Benjamin Gordon	[39]
25	Jan Gorodkin	[9] [13] [35]
26	D. Guhathakurta	[26]
27	Alexander J. Hartemink	[43]
28	G. W. Hartzell III	[3]
29	David Haussler	[2] [5]
30	Jakob Hull Havgaard	[35]
31	G. Z. Hertz	[3] [7] [10] [16]
32	John M. Heumann	[6]
33	Laurie J. Heyer	[9] [13]
34	M. C. Hresko	[26]
35	Trey Ideker	[34]
36	Yongmei Ji	[32] [42]
37	Scott T. Kelley	[18] [19]
38	Eugene V. Koonin	[24]
39	Alan S. Lapedes	[6] [25]
40	Samuel Levy	[11] [15]
41	Fugen Li	[21] [23]
42	Jin Billy Li	[36]
43	Jiajian Liu	[37] [44]
44	John Logsdon	[24]
45	Rune B. Lyngsø	[35]
46	Kenzie D. MacIsaac	[39]
47	Ross M. McConnell	[2]
48	Eugene W. Myers (Gene Myers)	[15]
49	Rakesh Nagarajan	[40]
50	Mitsuru Ohsugi	[41]
51	M. Alan Permutt	[41]
52	D. S. Prestridge	[4]
53	Jianhua Ruan	[30] [31] [33]
54	Andrej Sali	[24]
55	Thomas D. Schneider	[1] [2]
56	L. A. Schriefer	[26]
57	Richard Souvenir	[29]
58	Jack E. Tabaska	[12] [14]
59	Debraj Guha Thakurta	[22]
60	Ting Wang	[28] [39]
61	R. H. Waterston	[26]
62	D. C. Weaver	[17]
63	Christopher T. Workman	[17] [34]
64	Xing Xu	[32] [42]
65	M. A. Yarus	[1]
66	Yutong Yin	[34]
67	Miao Zhang	[36]
68	Weixiong Zhang	[29] [30] [31] [33]
69	Yiyong Zhou	[41]
70	Igor B. Zhulin	[24]

Colors in the list of coauthors