Search Tools and Software | Sanger Institute
http://www.sanger.ac.uk/science/tools
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REAPR: a universal tool for genome assembly evaluation. (May 27, 2013)
EMu: probabilistic inference of mutational processes and their localization in the cancer genome. (Apr 29, 2013)
optiCall: a robust genotype-calling algorithm for rare, low-frequency and common variants. (Jun 15, 2012)
MouseFinder: Candidate disease genes from mouse phenotype data. (May, 2012)
CCRaVAT and QuTie-enabling analysis of rare variants in large-scale case control and quantitative trait association studies. (Oct 21, 2010)
A Bayesian framework to account for complex non-genetic factors in gene expression levels greatly increases power in eQTL studies. (May 6, 2010)
GLIDERS--a web-based search engine for genome-wide linkage disequilibrium between HapMap SNPs. (Oct 31, 2009)
DNAPlotter: circular and linear interactive genome visualization. (Jan 1, 2009)
Artemis and ACT: viewing, annotating and comparing sequences stored in a relational database. (Dec 1, 2008)
NestedMICA as an ab initio protein motif discovery tool. (Jan 14, 2008)
ProServer: a simple, extensible Perl DAS server. (Jun 15, 2007)
Genomix: a method for combining gene-finders' predictions, which uses evolutionary conservation of sequence and intron-exon structure. (Jun 15, 2007)
Interpolated variable order motifs for identification of horizontally acquired DNA: revisiting the Salmonella pathogenicity islands. (Sep 15, 2006)
Adaptive evolution in two large families of ubiquitin-ligase adapters in nematodes and plants. (Aug, 2006)
Visualizing profile-profile alignment: pairwise HMM logos. (Jun 15, 2005)
AnoEST: toward A. gambiae functional genomics. (Jun, 2005)
The Chlamydophila abortus genome sequence reveals an array of variable proteins that contribute to interspecies variation. (May, 2005)
iPfam: visualization of protein-protein interactions in PDB at domain and amino acid resolutions. (Feb 1, 2005)
Rfam: annotating non-coding RNAs in complete genomes. (Jan 1, 2005)
Transcriptome analysis for the chicken based on 19,626 finished cDNA sequences and 485,337 expressed sequence tags. (Jan, 2005)
Comparative analysis of apicomplexa and genomic diversity in eukaryotes. (Sep, 2004)
Improved techniques for the identification of pseudogenes. (Aug 4, 2004)
Complete MHC haplotype sequencing for common disease gene mapping. (Jun, 2004)
The genomic sequence and comparative analysis of the rat major histocompatibility complex. (Apr, 2004)
HMM Logos for visualization of protein families. (Jan 21, 2004)
Genome sequence of an M3 strain of Streptococcus pyogenes reveals a large-scale genomic rearrangement in invasive strains and new insights into phage evolution. (Jun, 2003)
Comparative gene prediction in human and mouse. (Jan, 2003)
Reevaluating human gene annotation: a second-generation analysis of chromosome 22. (Jan, 2003)
Signatures of domain shuffling in the human genome. (Nov, 2002)
Comparative ab initio prediction of gene structures using pair HMMs. (Oct, 2002)
GAZE: a generic framework for the integration of gene-prediction data by dynamic programming. (Sep, 2002)
Structure and evolution of the Smith-Magenis syndrome repeat gene clusters, SMS-REPs. (May, 2002)
A sequence-based integrated map of chromosome 22. (Jul, 2001)
Sequence and analysis of chromosome I of the amitochondriate intracellular parasite Encephalitozoon cuniculi (Microspora). (Feb, 2001)
Viral genome organizer: a system for analyzing complete viral genomes. (Sep, 2000)
MAGPIE/EGRET annotation of the 2.9-Mb Drosophila melanogaster Adh region. (Apr, 2000)
Comparative analysis of noncoding regions of 77 orthologous mouse and human gene pairs. (Sep, 1999)
Pfam 3.1: 1313 multiple alignments and profile HMMs match the majority of proteins. (Jan 1, 1999)
Sequence assembly with CAFTOOLS. (Mar, 1998)
SPEM: a parser for EMBL style flat file database entries. (1998)
REAPR: a universal tool for genome assembly evaluation. (May 27, 2013)
EMu: probabilistic inference of mutational processes and their localization in the cancer genome. (Apr 29, 2013)
optiCall: a robust genotype-calling algorithm for rare, low-frequency and common variants. (Jun 15, 2012)
MouseFinder: Candidate disease genes from mouse phenotype data. (May, 2012)
CCRaVAT and QuTie-enabling analysis of rare variants in large-scale case control and quantitative trait association studies. (Oct 21, 2010)
A Bayesian framework to account for complex non-genetic factors in gene expression levels greatly increases power in eQTL studies. (May 6, 2010)
GLIDERS--a web-based search engine for genome-wide linkage disequilibrium between HapMap SNPs. (Oct 31, 2009)
DNAPlotter: circular and linear interactive genome visualization. (Jan 1, 2009)
Artemis and ACT: viewing, annotating and comparing sequences stored in a relational database. (Dec 1, 2008)
NestedMICA as an ab initio protein motif discovery tool. (Jan 14, 2008)
ProServer: a simple, extensible Perl DAS server. (Jun 15, 2007)
Genomix: a method for combining gene-finders' predictions, which uses evolutionary conservation of sequence and intron-exon structure. (Jun 15, 2007)
Interpolated variable order motifs for identification of horizontally acquired DNA: revisiting the Salmonella pathogenicity islands. (Sep 15, 2006)
Adaptive evolution in two large families of ubiquitin-ligase adapters in nematodes and plants. (Aug, 2006)
Visualizing profile-profile alignment: pairwise HMM logos. (Jun 15, 2005)
AnoEST: toward A. gambiae functional genomics. (Jun, 2005)
The Chlamydophila abortus genome sequence reveals an array of variable proteins that contribute to interspecies variation. (May, 2005)
iPfam: visualization of protein-protein interactions in PDB at domain and amino acid resolutions. (Feb 1, 2005)
Rfam: annotating non-coding RNAs in complete genomes. (Jan 1, 2005)
Transcriptome analysis for the chicken based on 19,626 finished cDNA sequences and 485,337 expressed sequence tags. (Jan, 2005)
Comparative analysis of apicomplexa and genomic diversity in eukaryotes. (Sep, 2004)
Improved techniques for the identification of pseudogenes. (Aug 4, 2004)
Complete MHC haplotype sequencing for common disease gene mapping. (Jun, 2004)
The genomic sequence and comparative analysis of the rat major histocompatibility complex. (Apr, 2004)
HMM Logos for visualization of protein families. (Jan 21, 2004)
Genome sequence of an M3 strain of Streptococcus pyogenes reveals a large-scale genomic rearrangement in invasive strains and new insights into phage evolution. (Jun, 2003)
Comparative gene prediction in human and mouse. (Jan, 2003)
Reevaluating human gene annotation: a second-generation analysis of chromosome 22. (Jan, 2003)
Signatures of domain shuffling in the human genome. (Nov, 2002)
Comparative ab initio prediction of gene structures using pair HMMs. (Oct, 2002)
GAZE: a generic framework for the integration of gene-prediction data by dynamic programming. (Sep, 2002)
Structure and evolution of the Smith-Magenis syndrome repeat gene clusters, SMS-REPs. (May, 2002)
A sequence-based integrated map of chromosome 22. (Jul, 2001)
Sequence and analysis of chromosome I of the amitochondriate intracellular parasite Encephalitozoon cuniculi (Microspora). (Feb, 2001)
Viral genome organizer: a system for analyzing complete viral genomes. (Sep, 2000)
MAGPIE/EGRET annotation of the 2.9-Mb Drosophila melanogaster Adh region. (Apr, 2000)
Comparative analysis of noncoding regions of 77 orthologous mouse and human gene pairs. (Sep, 1999)
Pfam 3.1: 1313 multiple alignments and profile HMMs match the majority of proteins. (Jan 1, 1999)
Sequence assembly with CAFTOOLS. (Mar, 1998)
SPEM: a parser for EMBL style flat file database entries. (1998)