Sean R. Eddy

	2009
31		Diana L. Kolbe, Sean R. Eddy: Local RNA structure alignment with incomplete sequence. Bioinformatics 25(10): 1236-1243 (2009)
30		Eric P. Nawrocki, Diana L. Kolbe, Sean R. Eddy: Infernal 1.0: inference of RNA alignments. Bioinformatics 25(10): 1335-1337 (2009)
29		Fred P. Davis, Sean R. Eddy: A tool for identification of genes expressed in patterns of interest using the Allen Brain Atlas. Bioinformatics 25(13): 1647-1654 (2009)
28		Eric P. Nawrocki, Diana L. Kolbe, Sean R. Eddy: Infernal 1.0: inference of RNA alignments. Bioinformatics 25(13): 1713 (2009)
27		Paul P. Gardner, Jennifer Daub, John G. Tate, Eric P. Nawrocki, Diana L. Kolbe, Stinus Lindgreen, Adam C. Wilkinson, Robert D. Finn, Sam Griffiths-Jones, Sean R. Eddy, Alex Bateman: Rfam: updates to the RNA families database. Nucleic Acids Research 37(Database-Issue): 136-140 (2009)
	2008
26		Robert D. Finn, John G. Tate, Jaina Mistry, Penny C. Coggill, Stephen John Sammut, Hans-Rudolf Hotz, Goran Ceric, Kristoffer Forslund, Sean R. Eddy, Erik L. L. Sonnhammer, Alex Bateman: The Pfam protein families database. Nucleic Acids Research 36(Database-Issue): 281-288 (2008)
	2006
25		Robin D. Dowell, Sean R. Eddy: Efficient pairwise RNA structure prediction and alignment using sequence alignment constraints. BMC Bioinformatics 7: 400 (2006)
24		Robert D. Finn, Jaina Mistry, Benjamin Schuster-Böckler, Sam Griffiths-Jones, Volker Hollich, Timo Lassmann, Simon Moxon, Mhairi Marshall, Ajay Khanna, Richard Durbin, Sean R. Eddy, Erik L. L. Sonnhammer, Alex Bateman: Pfam: clans, web tools and services. Nucleic Acids Research 34(Database-Issue): 247-251 (2006)
	2005
23		Sam Griffiths-Jones, Simon Moxon, Mhairi Marshall, Ajay Khanna, Sean R. Eddy, Alex Bateman: Rfam: annotating non-coding RNAs in complete genomes. Nucleic Acids Research 33(Database-Issue): 121-124 (2005)
	2004
22		Robin D. Dowell, Sean R. Eddy: Evaluation of several lightweight stochastic context-free grammars for RNA secondary structure prediction. BMC Bioinformatics 5: 71 (2004)
21		Alex Bateman, Lachlan James M. Coin, Richard Durbin, Robert D. Finn, Volker Hollich, Sam Griffiths-Jones, Ajay Khanna, Mhairi Marshall, Simon Moxon, Erik L. L. Sonnhammer, David J. Studholme, Corin Yeats, Sean R. Eddy: The Pfam protein families database. Nucleic Acids Research 32(Database-Issue): 138-141 (2004)
	2003
20		Robert J. Klein, Sean R. Eddy: RSEARCH: Finding homologs of single structured RNA sequences. BMC Bioinformatics 4: 44 (2003)
19		Sam Griffiths-Jones, Alex Bateman, Mhairi Marshall, Ajay Khanna, Sean R. Eddy: Rfam: an RNA family database. Nucleic Acids Research 31(1): 439-441 (2003)
	2002
18		Christian M. Zmasek, Sean R. Eddy: RIO: Analyzing proteomes by automated phylogenomics using resampled inference of orthologs. BMC Bioinformatics 3: 14 (2002)
17		Sean R. Eddy: A memory-efficient dynamic programming algorithm for optimal alignment of a sequence to an RNA secondary structure. BMC Bioinformatics 3: 18 (2002)
16		Alex Bateman, Ewan Birney, Lorenzo Cerutti, Richard Durbin, Laurence Ettwiller, Sean R. Eddy, Sam Griffiths-Jones, Kevin L. Howe, Mhairi Marshall, Erik L. L. Sonnhammer: The Pfam Protein Families Database. Nucleic Acids Research 30(1): 276-280 (2002)
	2001
15		Robin D. Dowell, Rodney M. Jokerst, Allen Day, Sean R. Eddy, Lincoln Stein: The Distributed Annotation System. BMC Bioinformatics 2: 7 (2001)
14		Elena Rivas, Sean R. Eddy: Noncoding RNA gene detection using comparative sequence analysis. BMC Bioinformatics 2: 8 (2001)
13		Christian M. Zmasek, Sean R. Eddy: ATV: display and manipulation of annotated phylogenetic. Bioinformatics 17(4): 383-384 (2001)
12		Christian M. Zmasek, Sean R. Eddy: A simple algorithm to infer gene duplication and speciation events on a gene tree. Bioinformatics 17(9): 821-828 (2001)
	2000
11		Elena Rivas, Sean R. Eddy: The language of RNA: a formal grammar that includes pseudoknots. Bioinformatics 16(4): 334-340 (2000)
10		Elena Rivas, Sean R. Eddy: Secondary structure alone is generally not statistically significant for the detection of noncoding RNAs. Bioinformatics 16(7): 583-605 (2000)
9		Alex Bateman, Ewan Birney, Richard Durbin, Sean R. Eddy, Kevin L. Howe, Erik L. L. Sonnhammer: The Pfam Protein Families Database. Nucleic Acids Research 28(1): 263-266 (2000)
	1999
8		Alex Bateman, Ewan Birney, Richard Durbin, Sean R. Eddy, Robert D. Finn, Erik L. L. Sonnhammer: Pfam 3.1: 1313 multiple alignments and profile HMMs match the majority of proteins. Nucleic Acids Research 27(1): 260-262 (1999)
	1998
7		Richard Durbin, Sean R. Eddy, Anders Krogh, Graeme J. Mitchison: Biological Sequence Analysis: Probabilistic Models of Proteins and Nucleic Acids Cambridge University Press 1998
6		Sean R. Eddy: [Invited Lecture] Genome sequence analysis and profile hidden Markov models. German Conference on Bioinformatics 1998
5		Sean R. Eddy: Profile hidden Markov models. Bioinformatics 14(9): 755-763 (1998)
4		Erik L. L. Sonnhammer, Sean R. Eddy, Ewan Birney, Alex Bateman, Richard Durbin: Pfam: multiple sequence alignments and HMM-profiles of protein domains. Nucleic Acids Research 26(1): 320-322 (1998)
	1995
3		Henry Ellingworth, Sean R. Eddy: RNA structure alignment on a massively parallel computer. HPCN Europe 1995: 502-507
2		Sean R. Eddy: Multiple Alignment Using Hidden Markov Models. ISMB 1995: 114-120
1		Sean R. Eddy, Graeme J. Mitchison, Richard Durbin: Maximum Discrimination Hidden Markov Models of Sequence Consensus. Journal of Computational Biology 2(1): 9-23 (1995)

Coauthor Index

1	Alex Bateman	[4] [8] [9] [16] [19] [21] [23] [24] [26] [27]
2	Ewan Birney	[4] [8] [9] [16]
3	Goran Ceric	[26]
4	Lorenzo Cerutti	[16]
5	Penny C. Coggill	[26]
6	Lachlan James M. Coin	[21]
7	Jennifer Daub	[27]
8	Fred P. Davis	[29]
9	Allen Day	[15]
10	Robin D. Dowell	[15] [22] [25]
11	Richard Durbin	[1] [4] [7] [8] [9] [16] [21] [24]
12	Henry Ellingworth	[3]
13	Laurence Ettwiller	[16]
14	Robert D. Finn	[8] [21] [24] [26] [27]
15	Kristoffer Forslund	[26]
16	Paul P. Gardner	[27]
17	Sam Griffiths-Jones	[16] [19] [21] [23] [24] [27]
18	Volker Hollich	[21] [24]
19	Hans-Rudolf Hotz	[26]
20	Kevin L. Howe	[9] [16]
21	Rodney M. Jokerst	[15]
22	Ajay Khanna	[19] [21] [23] [24]
23	Robert J. Klein	[20]
24	Diana L. Kolbe	[27] [28] [30] [31]
25	Anders Krogh	[7]
26	Timo Lassmann	[24]
27	Stinus Lindgreen	[27]
28	Mhairi Marshall	[16] [19] [21] [23] [24]
29	Jaina Mistry	[24] [26]
30	Graeme J. Mitchison	[1] [7]
31	Simon Moxon	[21] [23] [24]
32	Eric P. Nawrocki	[27] [28] [30]
33	Elena Rivas	[10] [11] [14]
34	Stephen John Sammut	[26]
35	Benjamin Schuster-Böckler	[24]
36	Erik L. L. Sonnhammer	[4] [8] [9] [16] [21] [24] [26]
37	Lincoln Stein	[15]
38	David J. Studholme	[21]
39	John G. Tate	[26] [27]
40	Adam C. Wilkinson	[27]
41	Corin Yeats	[21]
42	Christian M. Zmasek	[12] [13] [18]

Colors in the list of coauthors