Biology Reference
In-Depth Information
6. Dubchak I. (2007) Comparative analysis and visualization of genomic sequences
using VISTA browser and associated computational tools.
Methods Mol Biol
395
: 3-16.
7. Elsik CG, Mackey AJ, Reese JT
et al
. (2007) Creating a honey bee consensus
gene set.
Genome Biol
8
(1): R13.
8. Shah SP, McVicker GP, Mackworth AK
et al
. (2003) GeneComber: combining
outputs of gene prediction programs for improved results.
Bioinformatics
19
(10): 1296-7.
9. Allen JE, Salzberg SL. (2005) JIGSAW: integration of multiple sources of
evidence for gene prediction.
Bioinformatics
21
(18): 3596-603.
10. Guigo R, Flicek P, Abril JF
et al
. (2006) EGASP: the human ENCODE Genome
Annotation Assessment Project.
Genome Biol
7 (
Suppl 1): S21-31.
11. Carninci P, Kasukawa T, Katayama S
et al
. (2005) The transcriptional landscape
of the mammalian genome.
Science
309
(5740): 1559-63.
12. Hulo N, Bairoch A, Bulliard V
et al
. (2008) The 20 years of PROSITE.
Nucleic
Acids Res
36
(Database issue): D245-9.
13. Letunic I, Copley RR, Pils B
et al
. (2006) SMART 5: domains in the context of
genomes and networks.
Nucleic Acids Res
34
(Database issue): D257-60.
14. Finn RD, Tate J, Mistry J
et al
. (2008) The Pfam protein families database.
Nucleic Acids Res
36
(Database issue): D281-8.
15. Andreeva A, Howorth D, Chandonia JM
et al
. (2008) Data growth and its impact
on the SCOP database: new developments.
Nucleic Acids Res
36
(Database issue):
D419-25.
16. Greene LH, Lewis TE, Addou S
et al
. (2007) The CATH domain structure data-
base: new protocols and classification levels give a more comprehensive resource
for exploring evolution.
Nucleic Acids Res
35
(Database issue): D291-7.
17. Mulder NJ, Apweiler R, Attwood TK
et al
. (2003) The InterPro Database,
2003 brings increased coverage and new features.
Nucleic Acids Res
31
(1):
315-8.
18. Zdobnov EM, Apweiler R. (2001) InterProScan — an integration platform for
the signature-recognition methods in InterPro.
Bioinformatics
17
(9): 847-8.
19. Krause A, Stoye J, Vingron M. (2005) Large scale hierarchical clustering of
protein sequences.
BMC Bioinformatics
6
: 15.
20. Kriventseva EV, Fleischmann W, Zdobnov EM, Apweiler R. (2001) CluSTr: a
database of clusters of SWISS-PROT+TrEMBL proteins.
Nucleic Acids Res
29
(1): 33-6.
21. Barton G. (1993, 2002) OC — a cluster analysis program. www.compbio.
dundee.ac.uk/downloads/oc/. University of Dundee, Scotland, UK.
22. Niimura Y, Nei M. (2006) Evolutionary dynamics of olfactory and other
chemosensory receptor genes in vertebrates.
J Hum Genet
51
(6): 505-17.
23. Shakhnovich BE, Koonin EV. (2006) Origins and impact of constraints in
evolution of gene families.
Genome Res
16
(12): 1529-36.
