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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | ||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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hiPathDB - human integrated Pathway DB with facile visualization Resource Report Resource Website 1+ mentions |
hiPathDB - human integrated Pathway DB with facile visualization (RRID:SCR_008900) | hiPathDB | data or information resource, database | hiPathDB is an integrated pathway database that combines the curated human pathway data of NCI-Nature PID, Reactome, BioCarta and KEGG. In total, it includes 1661 pathways consisting of 8976 distinct physical entities. (2010.03.09) hiPathDB provides two different types of integration. The pathway-level integration, conceptually a simple collection of individual pathways, was achieved by devising an elaborate model that takes distinct features of four databases into account and subsequently reformatting all pathways in accordance with our model. The entity-level integration creates a single unified pathway that encompasses all pathways by merging common components. Even though the detailed molecular-level information such as complex formation or post-translational modifications tends to be lost, such integration makes it possible to investigate signaling network over the entire pathways and allows identification of pathway cross-talks. Another strong merit of hiPathDB is the built-in pathway visualization module that supports explorative studies of complex networks in an interactive fashion. The layout algorithm is optimized for virtually automatic visualization of the pathways. | pathway, gene, compound, interaction, bio.tools |
is listed by: Debian is listed by: bio.tools is related to: KEGG is related to: BioCarta Pathways is related to: Reactome is related to: Pathway Interaction Database has parent organization: Korea Research Institute of Bioscience and Biotechnology; Daejeon; South Korea |
Ewha Womans University; Seoul; Korea ; Korean Ministry of Education Science and Technology 2011-000232; Korean Ministry of Education Science and Technology 2011-0019745; Korean Ministry of Education Science and Technology R15-2006-020 |
PMID:22123737 | nlx_151413, biotools:hipathdb | https://bio.tools/hipathdb | SCR_008900 | SciCrunch Registry | Human Integrated Pathway Database | 2026-09-26 02:18:43 | 3 | |||||
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Biopieces Resource Report Resource Website 10+ mentions |
Biopieces (RRID:SCR_005783) | Biopieces | software resource, software toolkit, source code | A collection of bioinformatics tools that can be pieced together in a very easy and flexible manner to perform both simple and complex tasks. The Biopieces work on a data stream in such a way that the data stream can be passed through several different Biopieces, each performing one specific task: modifying or adding records to the data stream, creating plots, or uploading data to databases and web services. The Biopieces are executed in a command line environment where the data stream is initialized by specific Biopieces which read data from files, databases, or web services, and output records to the data stream that is passed to downstream Biopieces until the data stream is terminated at the end of the analysis. The advantage of the Biopieces is that a user can easily solve simple and complex tasks without having any programming experience. Moreover, since the data format used to pass data between Biopieces is text based, different developers can quickly create new Biopieces in their favorite programming language - and all the Biopieces will maintain compatibility. Finally, templates exist for creating new Biopieces in Perl and Ruby. There are currently ~190 Biopieces (March 2014). | bioinformatics, tool, framework, biopieces, language independent, bio.tools, FASEB list |
is listed by: OMICtools is listed by: bio.tools is listed by: Debian has parent organization: Google Project Hosting |
Danish Agency for Science Technology and Innovation 272-06-0325 | GNU General Public License, v2 | nlx_149253, biotools:biopieces, OMICS_01036 | http://code.google.com/p/biopieces/, https://bio.tools/biopieces | SCR_005783 | SciCrunch Registry | www.biopieces.org, biopieces - Biopieces is a bioinformatic framework of tools easily used and easily created | 2026-09-26 02:19:48 | 40 | |||||
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Segway - a way to segment the genome Resource Report Resource Website 10+ mentions |
Segway - a way to segment the genome (RRID:SCR_004206) | software resource, source code | The free Segway software package contains a novel method for analyzing multiple tracks of functional genomics data. The method uses a dynamic Bayesian network (DBN) model, which enables it to analyze the entire genome at 1-bp resolution even in the face of heterogeneous patterns of missing data. This method is the first application of DBN techniques to genome-scale data and the first genomic segmentation method designed for use with the maximum resolution data available from ChIP-seq experiments without downsampling. Segway uses the Graphical Models Toolkit (GMTK) for efficient DBN inference. The software has extensive documentation and was designed from the outset with external users in mind. | genome annotation, source code, bayesian network model, bayesian, chip seq, dbn, bio.tools |
is used by: ENCODE is listed by: Debian is listed by: bio.tools has parent organization: University of Washington; Seattle; USA has parent organization: University of Toronto; Ontario; Canada |
PMID:22426492 | Free | biotools:segway, nlx_22911 | https://www.pmgenomics.ca/hoffmanlab/proj/segway/, https://bitbucket.org/hoffmanlab/segway/, https://bio.tools/segway | http://noble.gs.washington.edu/proj/segway/ | SCR_004206 | SciCrunch Registry | Segway | 2026-09-26 02:19:47 | 10 | |||||
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VIDA Resource Report Resource Website 100+ mentions |
VIDA (RRID:SCR_007111) | VIDA | data or information resource, data set | VIDA contains a collection of homologous protein families derived from open reading frames from complete and partial virus genomes. For each family, users can get an alignment of the conserved regions, functional and taxonomy information, and links to DNA sequences and structures. * Search homologous protein families from particular virus families * Links to complete genome sequence: Arteriviridae, Coronaviridae, Herpesviridae, Poxviridae The Virus Database at University College London has been developed as a system to organize animal virus open reading frame sequences. All known and predicted protein sequences from complete and partial genomes of particular virus families are extracted from GenBank and filtered to remove 100% redundancy. On the basis of sequence similarity the sequences are then clustered into homologous protein families (HPFs). The families are enriched with annotations including function and functional classification, related protein structures, taxonomy, length of the proteins, boundaries of the conserved region/s, virus-specific gene name and links to EMBL entries and SWISSPROT., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | genomics, non-vertebrate, viral genome, homologous protein, hpf, viral genome, virus, bio.tools, FASEB list |
is listed by: Debian is listed by: bio.tools has parent organization: University College London; London; United Kingdom |
BBSRC ; MRC |
PMID:11125070 | THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-03628, biotools:vida | https://bio.tools/vida | http://www.biochem.ucl.ac.uk/bsm/virus_database/VIDA.html | SCR_007111 | SciCrunch Registry | Virus Database at University College London, Virus Database, VIDA Virus Database | 2026-09-26 02:19:49 | 193 | |||
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CUDASW++ Resource Report Resource Website 1+ mentions |
CUDASW++ (RRID:SCR_008862) | CUDASW++ | software resource, source code | CUDASW++ is a bioinformatics software for Smith-Waterman protein database searches that takes advantage of the massively parallel CUDA architecture of NVIDIA Tesla GPUs to perform sequence searches 10x-50x faster than NCBI BLAST. In this algorithm, we deeply explore the SIMT (Single Instruction, Multiple Thread) and virtualized SIMD (Single Instruction, Multiple Data) abstractions to achieve fast speed. This algorithm has been fully tested on Tesla C1060, Tesla C2050, GeForce GTX 280 and GTX 295 graphics cards, and has been incorporated to NVIDIA Tesla Bio Workbench. * Operating System: Linux * Programming language: CUDA and C * Other requirements: CUDA SDK and Toolkits 2.0 or higher | smith-waterman, bioinformatics, protein, protein database, sequence, simt, simd, bio.tools |
is listed by: bio.tools is listed by: Debian has parent organization: SourceForge has parent organization: Nanyang Technological University; Singapore; Singapore |
PMID:19416548 PMID:20370891 |
Open-source | nlx_149212, biotools:cudasw | https://bio.tools/cudasw | SCR_008862 | SciCrunch Registry | CUDASW++ (Smith Waterman) | 2026-09-26 02:19:50 | 5 | |||||
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Genome Database for Rosaceae Resource Report Resource Website 500+ mentions |
Genome Database for Rosaceae (RRID:SCR_012756) | data or information resource, database | GDR is a curated and integrated web-based relational database. GDR contains comprehensive data of the genetically anchored peach physical map, annotated EST databases of apple, peach, almond, cherry, rose, raspberry and strawberry, Rosaceae maps and markers and all publicly available Rosaceae sequences. Annotations of ESTs include contig assembly, putative function, simple sequence repeats, ORFs, Gene Ontology and anchored position to the peach physical map where applicable. Our integrated map viewer provides graphical interface to the genetic, transcriptome and physical mapping information. We continue to add Rosaceae map data to CMap, a web-based tool that allows users to view comparisons of genetic and physical maps. ESTs, BACs and markers can be queried by various categories and the search result sites are linked to the integrated map viewer or to the WebFPC physical map sites. In addition to browsing and querying the database, users can compare their sequences with the annotated GDR sequences via a dedicated sequence similarity server running either the BLAST or FASTA algorithm, search their sequences for microsatellites using the SSR server or assemble their ESTs using the CAP3 Server. | est, genome sequence, rosaceae, bio.tools, FASEB list |
is listed by: bio.tools is listed by: Debian has parent organization: Washington State University; Washington; USA |
nif-0000-02896, biotools:gdr | https://bio.tools/gdr | http://www.bioinfo.wsu.edu/gdr/ | SCR_012756 | SciCrunch Registry | GDR | 2026-09-26 02:18:48 | 662 | |||||||
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MINAS - Metal Ions in Nucleic AcidS Resource Report Resource Website 1+ mentions |
MINAS - Metal Ions in Nucleic AcidS (RRID:SCR_013145) | MINAS | data or information resource, database | Database compiling the detailed information on innersphere, outersphere and larger coordination environment of >70,000 metal ions of 36 elements found in >2000 structures of nucleic acids contained today in the PDB and NDB. MINAS is updated monthly with new structures and offers a multitude of search functions, e.g. the kind of metal ion, metal-ligand distance, innersphere and outersphere ligands defined by element or functional group, residue, experimental method, as well as PDB entry-related information. The results of each search can be saved individually for later use with so-called miniPDB files containing the respective metal ion together with the coordination environment within a 15 A radius. MINAS thus offers a unique way to explore the coordination geometries and ligands of metal ions together with the respective binding pockets in nucleic acids. | metal ion, binding pocket, nucleic acid, metal-ligand distance, innersphere ligand, outersphere ligand, ligand, element, functional group, residue, protein databank, bio.tools |
is listed by: 3DVC is listed by: Debian is listed by: bio.tools is related to: Nucleic Acid Database is related to: Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB PDB) has parent organization: University of Zurich; Zurich; Switzerland |
Swiss National Science Foundation PP002-68733/1 | PMID:22096233 | nlx_151459, biotools:minas | https://bio.tools/minas | SCR_013145 | SciCrunch Registry | Metal Ions in Nucleic AcidS, MINAS - A Database of Metal Ions in Nucleic AcidS | 2026-09-26 02:18:49 | 5 | |||||
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SYFPEITHI: A Database for MHC Ligands and Peptide Motifs Resource Report Resource Website 100+ mentions |
SYFPEITHI: A Database for MHC Ligands and Peptide Motifs (RRID:SCR_013182) | SYFPEITHI | data or information resource, database | SYFPEITHI is a database comprising more than 7000 peptide sequences known to bind class I and class II MHC molecules. The entries are compiled from published reports only. It contains a collection of MHC class I and class II ligands and peptide motifs of humans and other species, such as apes, cattle, chicken, and mouse, for example, and is continuously updated. Searches for MHC alleles, MHC motifs, natural ligands, T-cell epitopes, source proteins/organisms and references are possible. Hyperlinks to the EMBL and PubMed databases are included. In addition, ligand predictions are available for a number of MHC allelic products. The database is based on previous publications on T-cell epitopes and MHC ligands. It contains information on: -Peptide sequences -anchor positions -MHC specificity -source proteins, source organisms -publication references Since the number of motifs continuously increases, it was necessary to set up a database which facilitates the search for peptides and allows the prediction of T-cell epitopes. The prediction is based on published motifs (pool sequencing, natural ligands) and takes into consideration the amino acids in the anchor and auxiliary anchor positions, as well as other frequent amino acids. The score is calculated according to the following rules: The amino acids of a certain peptide are given a specific value depending on whether they are anchor, auxiliary anchor or preferred residue. Ideal anchors will be given 10 points, unusual anchors 6-8 points, auxiliary anchors 4-6 and preferred residues 1-4 points. Amino acids that are regarded as having a negative effect on the binding ability are given values between -1 and -3. Sponsors: SYFPEITHI is supported by DFG-Sonderforschungsbereich 685 and theEuropean Union: EU BIOMED CT95-1627, BIOTECH CT95-0263, and EU QLQ-CT-1999-00713. | epitope, allele, allelic, amino acid, ape, bind, cattle, chicken, class i, class ii, human, immunological database, ligand, mhc, molecule, motif, mouse, natural, organism, peptide, product, protein, sequence, specie, t-cell, bio.tools, FASEB list |
is listed by: bio.tools is listed by: Debian has parent organization: University of Tubingen; Tubingen; Germany |
nif-0000-21383, biotools:syfpeithi | https://bio.tools/syfpeithi | SCR_013182 | SciCrunch Registry | SYFPEITHI | 2026-09-26 02:18:50 | 269 | |||||||
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T-Coffee Resource Report Resource Website 1000+ mentions |
T-Coffee (RRID:SCR_011818) | T-Coffee | analysis service resource, data analysis service, production service resource, service resource | A multiple sequence alignment server which can align Protein, DNA and RNA sequences. | bio.tools |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools is listed by: SoftCite has parent organization: Center for Genomic Regulation; Barcelona; Spain |
PMID:10964570 DOI:10.1006/jmbi.2000.4042 |
biotools:tcoffee, OMICS_00989 | https://bio.tools/tcoffee, https://sources.debian.org/src/t-coffee/ | SCR_011818 | SciCrunch Registry | T-Coffee: Aligns DNA RNA or Proteins using the default T-Coffee | 2026-09-26 02:18:47 | 1157 | ||||||
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ProbCons Resource Report Resource Website 100+ mentions |
ProbCons (RRID:SCR_011813) | ProbCons | analysis service resource, data analysis service, production service resource, service resource | Efficient protein multiple sequence alignment program, which has demonstrated a statistically significant improvement in accuracy compared to several leading alignment tools. | bio.tools |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools is listed by: SoftCite has parent organization: Stanford University; Stanford; California |
PMID:15687296 DOI:10.1101/gr.2821705 |
OMICS_00986, biotools:probcons | https://bio.tools/probcons, https://sources.debian.org/src/probcons/ | SCR_011813 | SciCrunch Registry | ProbCons: Probabilistic Consistency-based Multiple Alignment of Amino Acid Sequences | 2026-09-26 02:18:47 | 109 | ||||||
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psRNATarget Resource Report Resource Website 1000+ mentions |
psRNATarget (RRID:SCR_013321) | psRNATarget | analysis service resource, data analysis service, production service resource, service resource | A plant small RNA target analysis server which features two important analysis functions: 1) reverse complementary matching between miRNA and target transcript using a proven scoring schema, and 2) target site accessibility evaluation by calculating unpaired energy (UPE) required to ?open? secondary structure around miRNA?s target site on mRNA. PsRNATarget incorporates recent discoveries in plant miRNA target recognition, e.g. it distinguishes translational and post-transcriptional inhibition, and it reports the number of miRNA/target site pairs that may affect miRNA binding activity to target transcript. PsRNATarget is designed for high-throughput analysis of next-generation data with an efficient distributed computing back-end pipeline that runs on a Linux cluster. The server front-end integrates three simplified user-friendly interfaces to accept user-submitted or preloaded miRNAs and transcript sequences; and outputs a comprehensive list of miRNA / target pairs along with the online tools for batch downloading, key word searching and results sorting., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | bio.tools |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools has parent organization: Samuel Roberts Noble Foundation |
PMID:21622958 | THIS RESOURCE IS NO LONGER IN SERVICE | OMICS_00414, biotools:psrnatarget | https://bio.tools/psrnatarget | SCR_013321 | SciCrunch Registry | psRNATarget: A Plant Small RNA Target Analysis Server | 2026-09-26 02:18:50 | 1117 | |||||
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CleanEx Resource Report Resource Website 10+ mentions |
CleanEx (RRID:SCR_012911) | data or information resource, database | CleanEx is a database which provides access to public gene expression data via unique approved gene symbols and which represents heterogeneous expression data produced by different technologies in a way that facilitates joint analysis and cross-dataset comparisons. To achieve this goal, each single gene expression experiment is regularly mapped on a permanent target identifier consisting of a physical description of the targeted RNA. There is one entry per gene. To have a complete view of the transcript and its product, we also link each entry to the corresponding protein. We further provide the genomic position of the transcription start site from EPD, when available. Otherwise we give the annotated start site position in Ensembl. | gene expression, data comparison, heterogeneous expression, bio.tools |
is listed by: bio.tools is listed by: Debian has parent organization: SIB Swiss Institute of Bioinformatics |
nif-0000-02667, biotools:cleanex | https://bio.tools/cleanex | SCR_012911 | SciCrunch Registry | CleanEx | 2026-09-26 02:18:49 | 29 | ||||||||
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FGENESH Resource Report Resource Website 100+ mentions |
FGENESH (RRID:SCR_011928) | FGENESH | analysis service resource, data analysis service, production service resource, service resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on August 10,2020. Data analysis service for Hidden Markov Model (HMM)-based gene structure prediction (multiple genes, both chains). | bio.tools |
is listed by: OMICtools is listed by: bio.tools is listed by: Debian is listed by: SoftCite |
THIS RESOURCE IS NO LONGER IN SERVICE | biotools:fgenesh, OMICS_01483 | https://bio.tools/fgenesh | SCR_011928 | SciCrunch Registry | 2026-09-26 02:18:47 | 330 | |||||||
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HSLPred Resource Report Resource Website |
HSLPred (RRID:SCR_011972) | HSLPred | analysis service resource, data analysis service, production service resource, service resource | A support vector machine (SVM)-based method for the prediction of 4 major subcellular localization (cytoplasm, mitochondrial, nuclear and plasma membrane) of human proteins using various features such as i) amino acid composition, ii) dipeptide composition and iii) evolutionary information of proteins. | subcellular localization, protein, support vector machine, bio.tools |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools has parent organization: Institute of Microbial Technology; Chandigarh; India |
PMID:15647269 | Acknowledgement requested | biotools:hslpred, OMICS_01622 | https://bio.tools/hslpred | SCR_011972 | SciCrunch Registry | HSLPred - A SVM-based Method for Subcellular Localization of Human Proteins | 2026-09-26 02:18:48 | 0 | |||||
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MBGD - Microbial Genome Database Resource Report Resource Website 50+ mentions |
MBGD - Microbial Genome Database (RRID:SCR_012824) | data or information resource, database | MBGD is a database for comparative analysis of completely sequenced microbial genomes, the number of which is now growing rapidly. The aim of MBGD is to facilitate comparative genomics from various points of view such as ortholog identification, paralog clustering, motif analysis and gene order comparison. The heart of MBGD function is to create orthologous or homologous gene cluster table. For this purpose, similarities between all genes are precomputed and stored into the database, in addition to the annotations of genes such as function categories that were assigned by the original authors and motifs that were found in the translated sequence. Using these homology data, MBGD dynamically creates orthologous gene cluster table. Users can change a set of organisms or cutoff parameters to create their own orthologous grouping. Based on this cluster table, users can further analyze multiple genomes from various points of view with the functions such as global map comparison, local map comparison, multiple sequence alignment and phylogenetic tree construction. | bio.tools, FASEB list |
is listed by: bio.tools is listed by: Debian has parent organization: National Institute for Basic Biology; Okazaki; Japan |
nif-0000-03105, biotools:mbgd | https://bio.tools/mbgd | SCR_012824 | SciCrunch Registry | MBGD | 2026-09-26 02:18:48 | 62 | ||||||||
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GENSCAN Resource Report Resource Website 500+ mentions |
GENSCAN (RRID:SCR_013362) | genscan | analysis service resource, data analysis service, production service resource, service resource | Web server for identification of complete gene structures in genomic DNA.Tool for predicting locations and exon-intron structures of genes in genomic sequences from variety of organisms. Used for prediction of complete gene structures in human genomic DNA. | complete gene structures identyfication, genomic DNA, predicting locations, exon-intron structures, genomic sequences, bio.tools |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools is related to: Stanford University; Stanford; California has parent organization: Massachusetts Institute of Technology; Massachusetts; USA; |
PMID:9149143 | Restricted | biotools:genscan, OMICS_01494 | https://bio.tools/genscan | SCR_013362 | SciCrunch Registry | GENSCAN Web Server at MIT | 2026-09-26 02:18:51 | 772 | |||||
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eProbalign Resource Report Resource Website |
eProbalign (RRID:SCR_013247) | analysis service resource, data analysis service, production service resource, service resource | Data analysis service that computes maximal expected accuracy multiple sequence alignments from partition function posterior probabilities. | multiple sequence alignments, partition function posterior probabilities, bio.tools |
uses: Probalign is listed by: OMICtools is listed by: Debian is listed by: bio.tools has parent organization: New Jersey Institute of Technology; New Jersey; USA |
NIGMS R01 GM073082 | PMID:17485479 | OMICS_00975, biotools:eprobalign | https://bio.tools/eprobalign | SCR_013247 | SciCrunch Registry | eProbalign web server, EProbalign | 2026-09-26 02:18:50 | 0 | ||||||
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Mouse Genome Database Resource Report Resource Website 500+ mentions |
Mouse Genome Database (RRID:SCR_012953) | MGD | data or information resource, database | Community model organism database for laboratory mouse and authoritative source for phenotype and functional annotations of mouse genes. MGD includes complete catalog of mouse genes and genome features with integrated access to genetic, genomic and phenotypic information, all serving to further the use of the mouse as a model system for studying human biology and disease. MGD is a major component of the Mouse Genome Informatics.Contains standardized descriptions of mouse phenotypes, associations between mouse models and human genetic diseases, extensive integration of DNA and protein sequence data, normalized representation of genome and genome variant information. Data are obtained and integrated via manual curation of the biomedical literature, direct contributions from individual investigators and downloads from major informatics resource centers. MGD collaborates with the bioinformatics community on the development and use of biomedical ontologies such as the Gene Ontology (GO) and the Mammalian Phenotype (MP) Ontology. | gene, genome, genetic, chromosome, clone, cytogenetic, dna, genomic, inbred, mammalian, mouse, mutant, ortholog, phenotype, primer, protein, reagent, sequence, strain, bio.tools |
is used by: DisGeNET is listed by: Debian is listed by: bio.tools is related to: Mouse Genome Informatics (MGI) has parent organization: Jackson Laboratory |
NHGRI HG000330 | PMID:21051359 | biotools:mgi, biotools:mgd, nif-0000-10301 | http://www.informatics.jax.org/mgihome/projects/overview.shtml, https://bio.tools/mgd, https://bio.tools/mgi | SCR_012953 | SciCrunch Registry | Mouse Genome Informatics: Mouse Genome Database, MGID, Mouse Genome Informatics Database | 2026-09-26 02:18:49 | 545 | |||||
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PREDDIMER Resource Report Resource Website 10+ mentions |
PREDDIMER (RRID:SCR_011963) | PREDDIMER | analysis service resource, data analysis service, production service resource, service resource | Prediction tool to reconstruct putative dimer conformations for given sequences of transmembrane protein fragments, which are considered as ideal alpha-helices. | bio.tools |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools |
PMID:24202542 | Free | OMICS_01614, biotools:preddimer | https://bio.tools/preddimer | SCR_011963 | SciCrunch Registry | PREDDIMER - Prediction tool for an ensemble of transmembrane ?-helical dimer conformations | 2026-09-26 02:18:47 | 15 | |||||
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Cube-DB Resource Report Resource Website 1+ mentions |
Cube-DB (RRID:SCR_013233) | Cube-DB | data or information resource, database | Cube-DB is a database of pre-evaluated conservation and specialization scores for residues in paralogous proteins belonging to multi-member families of human proteins. Protein family classification follows (largely) the classification suggested by HUGO Gene Nomenclature Committee. Sets of orhtologous protein sequences were generated by mutual-best-hit strategy using full vertebrate genomes available in Ensembl. The scores, described on documentation page, are assigned to each individual residue in a protein, and presented in the form of a table (html or downloadable xls formats) and mapped, when appropriate, onto the related structure (Jmol, Pymol, Chimera). | protein, functional divergence, vertebrate, genome, ortholog, protein sequence, data set, bio.tools |
is listed by: 3DVC is listed by: Debian is listed by: bio.tools has parent organization: Bioinformatics Institute; Singapore; Singapore |
PMID:22139934 | nlx_149432, biotools:cube-db | https://bio.tools/cube-db | SCR_013233 | SciCrunch Registry | Cube-DB: Detection of Functional Divergence in Human Protein Families | 2026-09-26 02:18:50 | 3 |
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The NIDDK Information Network (dkNET) serves the needs of basic and clinical investigators by providing seamless access to large pools of data and research resources relevant to the mission of The National Institute of Diabetes Digestive and Kidney Diseases (NIDDK). dkNET is hosted at University of California San Diego, and is supported by NIH NIDDK grant U24DK097771.
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