A workbench for large-scale sequence homology analysis.

PubWeight™: 12.00‹?› | Rank: Top 0.1% | All-Time Top 10000

🔗 View Article (PMID 7922687)

Published in Comput Appl Biosci on June 01, 1994

Authors

E L Sonnhammer1, R Durbin

Author Affiliations

1: Sanger Centre, Hinxton Hall, Cambridge, UK.

Articles citing this

Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res (1997) 665.31

Pfam: multiple sequence alignments and HMM-profiles of protein domains. Nucleic Acids Res (1998) 8.87

Genotator: a workbench for sequence annotation. Genome Res (1997) 5.20

Comparative analysis of noncoding regions of 77 orthologous mouse and human gene pairs. Genome Res (1999) 4.50

The GENCODE pseudogene resource. Genome Biol (2012) 4.18

PowerBLAST: a new network BLAST application for interactive or automated sequence analysis and annotation. Genome Res (1997) 4.10

Gene discovery in the wood-forming tissues of poplar: analysis of 5, 692 expressed sequence tags. Proc Natl Acad Sci U S A (1998) 3.31

Reevaluating human gene annotation: a second-generation analysis of chromosome 22. Genome Res (2003) 3.03

Genomic gene clustering analysis of pathways in eukaryotes. Genome Res (2003) 2.89

MSDmotif: exploring protein sites and motifs. BMC Bioinformatics (2008) 2.48

Molecular characterization and placental expression of HERV-W, a new human endogenous retrovirus family. J Virol (1999) 2.29

Fusion of the human gene for the polyubiquitination coeffector UEV1 with Kua, a newly identified gene. Genome Res (2000) 2.19

Gene duplication and the structure of eukaryotic genomes. Genome Res (2001) 1.79

A re-annotation of the Saccharomyces cerevisiae genome. Comp Funct Genomics (2001) 1.75

PlasmoDB: An integrative database of the Plasmodium falciparum genome. Tools for accessing and analyzing finished and unfinished sequence data. The Plasmodium Genome Database Collaborative. Nucleic Acids Res (2001) 1.59

Assessment of SAGE in transcript identification. Genome Res (2003) 1.52

Generation and analysis of 25 Mb of genomic DNA from the pufferfish Fugu rubripes by sequence scanning. Genome Res (1999) 1.47

Multiplex SNP genotyping in pooled DNA samples by a four-colour microarray system. Nucleic Acids Res (2002) 1.44

Mapping and initial analysis of human subtelomeric sequence assemblies. Genome Res (2004) 1.42

The linear chromosome of the plant-pathogenic mycoplasma 'Candidatus Phytoplasma mali'. BMC Genomics (2008) 1.42

Gene number in an invertebrate chordate, Ciona intestinalis. Proc Natl Acad Sci U S A (1998) 1.27

Alfresco--a workbench for comparative genomic sequence analysis. Genome Res (2000) 1.19

Genome comparison of the epiphytic bacteria Erwinia billingiae and E. tasmaniensis with the pear pathogen E. pyrifoliae. BMC Genomics (2010) 1.12

Analyses of the extent of shared synteny and conserved gene orders between the genome of Fugu rubripes and human 20q. Genome Res (2002) 1.09

Development of an integrated genome informatics, data management and workflow infrastructure: a toolbox for the study of complex disease genetics. Hum Genomics (2004) 1.08

DoBo: Protein domain boundary prediction by integrating evolutionary signals and machine learning. BMC Bioinformatics (2011) 1.08

Parallel evolution by gene duplication in the genomes of two unicellular fungi. Genome Res (2003) 1.07

Fugu ESTs: new resources for transcription analysis and genome annotation. Genome Res (2003) 1.05

Tracing lifestyle adaptation in prokaryotic genomes. Front Microbiol (2012) 0.97

NotI clones in the analysis of the human genome. Nucleic Acids Res (2000) 0.87

The SBASE protein domain library, release 5.0: a collection of annotated protein sequence segments. Nucleic Acids Res (1997) 0.85

ADM-1, a protein with metalloprotease- and disintegrin-like domains, is expressed in syncytial organs, sperm, and sheath cells of sensory organs in Caenorhabditis elegans. Mol Biol Cell (1996) 0.84

The SBASE protein domain library, Release 4.0: a collection of annotated protein sequence segments. Nucleic Acids Res (1996) 0.84

Analysis of expressed genes of the bacterium 'Candidatus phytoplasma Mali' highlights key features of virulence and metabolism. PLoS One (2014) 0.80

Identification and characterization of genomic variations between Mycobacterium bovis and M. tuberculosis H37Rv. J Clin Microbiol (2005) 0.78

SeqTools: visual tools for manual analysis of sequence alignments. BMC Res Notes (2016) 0.75

Zebrafish Rab5 proteins and a role for Rab5ab in nodal signalling. Dev Biol (2014) 0.75

Articles by these authors

Initial sequencing and analysis of the human genome. Nature (2001) 212.86

The Pfam protein families database. Nucleic Acids Res (2000) 42.28

The Ensembl genome database project. Nucleic Acids Res (2002) 40.87

Pfam: a comprehensive database of protein domain families based on seed alignments. Proteins (1997) 26.91

Ensembl 2009. Nucleic Acids Res (2008) 25.38

The InterPro database, an integrated documentation resource for protein families, domains and functional sites. Nucleic Acids Res (2001) 24.45

Ensembl 2008. Nucleic Acids Res (2007) 20.67

Ensembl 2007. Nucleic Acids Res (2006) 20.10

WormBase: network access to the genome and biology of Caenorhabditis elegans. Nucleic Acids Res (2001) 18.52

Maximum discrimination hidden Markov models of sequence consensus. J Comput Biol (1995) 15.75

Ensembl 2005. Nucleic Acids Res (2005) 15.13

RNA sequence analysis using covariance models. Nucleic Acids Res (1994) 14.60

Ensembl 2002: accommodating comparative genomics. Nucleic Acids Res (2003) 12.26

Ensembl 2004. Nucleic Acids Res (2004) 11.88

Ensembl 2006. Nucleic Acids Res (2006) 11.66

Pfam 3.1: 1313 multiple alignments and profile HMMs match the majority of proteins. Nucleic Acids Res (1999) 11.64

Dynamite: a flexible code generating language for dynamic programming methods used in sequence comparison. Proc Int Conf Intell Syst Mol Biol (1997) 11.52

ACeDB and macace. Methods Cell Biol (1995) 10.64

Pfam: multiple sequence alignments and HMM-profiles of protein domains. Nucleic Acids Res (1998) 8.87

A dot-matrix program with dynamic threshold control suited for genomic DNA and protein sequence analysis. Gene (1995) 8.45

Using GeneWise in the Drosophila annotation experiment. Genome Res (2000) 7.50

InterPro--an integrated documentation resource for protein families, domains and functional sites. Bioinformatics (2000) 6.42

The DNA sequence and analysis of human chromosome 6. Nature (2003) 4.75

A survey of expressed genes in Caenorhabditis elegans. Nat Genet (1992) 4.63

Comparative analysis of noncoding regions of 77 orthologous mouse and human gene pairs. Genome Res (1999) 4.50

Software for genome mapping by fingerprinting techniques. Comput Appl Biosci (1988) 3.67

Dynamic programming alignment accuracy. J Comput Biol (1998) 3.22

Association of the Sindbis virus RNA methyltransferase activity with the nonstructural protein nsP1. Virology (1989) 2.64

Is there a single pathway for the folding of a polypeptide chain? Proc Natl Acad Sci U S A (1985) 2.62

Image analysis of restriction enzyme fingerprint autoradiograms. Comput Appl Biosci (1989) 2.55

The DNA sequence and biological annotation of human chromosome 1. Nature (2006) 2.42

A computational scan for U12-dependent introns in the human genome sequence. Nucleic Acids Res (2001) 2.21

Monoclonal antibodies to three epitopic regions of feline leukemia virus p27 and their use in enzyme-linked immunosorbent assay of p27. J Immunol Methods (1983) 1.94

Comparative sequence analysis of the human and pufferfish Huntington's disease genes. Nat Genet (1995) 1.55

The DNA sequence and analysis of human chromosome 13. Nature (2004) 1.33

Analysis of protein domain families in Caenorhabditis elegans. Genomics (1997) 1.30

Sequence assembly with CAFTOOLS. Genome Res (1998) 1.26

DNA sequence and analysis of human chromosome 9. Nature (2004) 1.21

Alfresco--a workbench for comparative genomic sequence analysis. Genome Res (2000) 1.19

An analogue approach to the travelling salesman problem using an elastic net method. Nature (1987) 1.19

An expert system for processing sequence homology data. Proc Int Conf Intell Syst Mol Biol (1994) 1.14

The DNA sequence and comparative analysis of human chromosome 10. Nature (2004) 1.14

Improved techniques for the identification of pseudogenes. Bioinformatics (2004) 1.04

The C. elegans expression pattern database: a beginning. Trends Genet (1996) 0.95

Method for calculation of probability of matching a bounded regular expression in a random data string. J Comput Biol (1995) 0.88

Transfection of a glycosylated phosphatidylinositol-anchored folate-binding protein complementary DNA provides cells with the ability to survive in low folate medium. J Clin Invest (1992) 0.86

Neural networks. Learning from your neighbour. Nature (1992) 0.75