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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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Composition Profiler Resource Report Resource Website 10+ mentions |
Composition Profiler (RRID:SCR_014630) | software resource, web application | Web tool for discovery and visualization of differences in amino acid composition. Two samples of amino acid sequences serve as input and a bar chart composed of twenty data points is output. | web tool, web application, amino acid, amino acid composition, sequence, bar chart, bio.tools |
is listed by: Debian is listed by: bio.tools |
PMID:17578581 | Source code available, Acknowledgement requested | biotools:composition_profiler | https://bio.tools/composition_profiler | SCR_014630 | 2026-08-05 10:46:09 | 32 | |||||||
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object-oriented Transcription Factors Database Resource Report Resource Website 1+ mentions |
object-oriented Transcription Factors Database (RRID:SCR_002435) | data or information resource, database | ooTFD (object-oriented Transcription Factors Database) is a successor to TFD, the original Transcription Factors Database. This database is aimed at capturing information regarding the polypeptide interactions which comprise and define the properties of transcription factors. ooTFD contains information about transcription factor binding sites, as well as composite relationships within transcription factors, which frequently occur as multisubunit proteins that form a complex interface to cellular processes outside the transcription machinery through protein-protein interactions. ooTFD contains information represented in TFD but also allows the representation of containment, composite, and interaction relationships between transcription factor polypeptides. It is designed to represent information about all transcription factors, both eukaryotic and prokaryotic, basal as well as regulatory factors, and multiprotein complexes as well as monomers. | eukaryotic, expression, factor, gene, basal, binding site, biochemical, biology, cellular, complex, genome, genomic, information, interaction, molecule, monomer, multisubunit, nucleotide sequences, transcriptional regulator sites, transcription factors, object, polypeptide, process, prokaryotic, property, protein, protein-protein interaction, regulatory, sequence, transcription | has parent organization: IFTI-Mirage | PMID:10592257 PMID:9847215 PMID:9399874 |
Free, Freely available | nif-0000-21303 | SCR_002435 | ooTFD | 2026-08-05 10:43:37 | 2 | |||||||
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Coddle-Codons Optimized to Discover Deleterious LEsions Resource Report Resource Website 10+ mentions |
Coddle-Codons Optimized to Discover Deleterious LEsions (RRID:SCR_003003) | CODDLE | data analysis service, production service resource, service resource, analysis service resource | THIS RESOURCE IS NO LONGER IN SERVICE, documented August 22, 2016. Web-accessible program that identifies the region(s) of a user-selected gene and of its coding sequence (CDS) where the anticipated point mutations are most likely to result in deleterious effects on the gene's function. CODDLe separately handles 1) the prediction of changes which should truncate the protein and destabilize the RNA - nonsense changes and splice junction changes, and 2) the prediction of missense changes which should alter function of the gene product - those in conserved amino acid blocks in the CDS. Because the region(s) identified will be PCR amplified by the user and that amplicon will be used for polymorphism discovery, the application delivers primer pairs selected by Primer3 (Steve Rozen, Helen J. Skaletsky (1996,1997,1998)Primer3.) After selecting a primer pair, CODDLe returns a window with the selected amplicon and tabulates the effects of all possible polymorphisms which could be detected in that amplicon. CODDLe will not identify the regions of a gene where polymorphisms are most likely to be discovered. Others have shown that naturally occurring SNPs are found more often in the untranslated regions of a gene. | codon, deleterious lesion, gene, coding, sequence, mutation, primer, protein sequence, cdna, sequence alignment, coding sequence |
is listed by: 3DVC has parent organization: Fred Hutchinson Cancer Center |
DOE ; Office of Energy Research |
THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-30262 | SCR_003003 | Choosing codons to Optimize Discovery of Deleterious Lesions, Codons Optimized to Discover Deleterious LEsions | 2026-08-05 10:43:44 | 16 | ||||||
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DrugBank Resource Report Resource Website 5000+ mentions |
DrugBank (RRID:SCR_002700) | DrugBank | data or information resource, database | Bioinformatics and cheminformatics database that combines detailed drug (i.e. chemical, pharmacological and pharmaceutical) data with comprehensive drug target (i.e. sequence, structure, and pathway) information. | drug, target, pathway, structure, pharmacology, drug class, chemical, pharmaceutical, drug target, sequence, reaction, interaction, protein, proteome, blast, data analysis service, small molecule-protein, small molecule, clinical medicine, pharmacy, medicine, pharmaceutical biotechnology, cheminformatics, FASEB list |
is used by: NIF Data Federation is used by: Open PHACTS is used by: In vivo - In silico Metabolite Database is used by: GEROprotectors is listed by: OMICtools is listed by: re3data.org is related to: ConsensusPathDB is related to: PharmGKB Ontology is related to: Allen Institute Neurowiki is related to: Coremine Medical is related to: MalaCards is related to: PSICQUIC Registry is related to: DrugPort is related to: Integrated Manually Extracted Annotation has parent organization: University of Alberta; Alberta; Canada |
Genome Alberta ; Genome Canada ; GenomeQuest Inc. ; Canadian Institutes of Health Research |
PMID:16381955 PMID:21059682 PMID:18048412 |
Free, Freely available | nif-0000-00417, OMICS_01580, r3d100010544 | https://doi.org/10.17616/R3V60M | SCR_002700 | 2026-08-05 10:43:40 | 5122 | |||||
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BiSearch: Primer Design and Search Tool Resource Report Resource Website 50+ mentions |
BiSearch: Primer Design and Search Tool (RRID:SCR_002980) | BiSearch | data analysis service, production service resource, service resource, analysis service resource | BiSearch is a primer-design algorithm for DNA sequences. It may be used for both bisulfite converted as well as for original not modified sequences. You can search various genomes with the designed primers to avoid non-specific PCR products by our fast ePCR method. This is especially recommended when primers are designed to amplify the highly redundant bisulfite treated sequences. It has the unique property of analyzing the primer pairs for mispriming sites on the bisulfite-treated genome and determines potential non-specific amplification products with a new search algorithm. The options of primer-design and analysis for mispriming sites can be used sequentially or separately, both on bisulfite-treated and untreated sequences. In silico and in vitro tests of the software suggest that new PCR strategies may increase the efficiency of the amplification. | dna, sequence, primer, design, algorithm, analysis, priming, bisulfite, genome, amplification, in vitro, in silico, amplification, epcr, cytosines | has parent organization: Hungarian Academy of Sciences; Budapest; Hungary | PXE International Inc. GVOP-3.1.1-2004-05-0143/3.0; Boolyai Janos Scholarship ; OTKA T34131; OTKA D42207 |
PMID:17022803 PMID:15653630 |
nif-0000-30170 | SCR_002980 | 2026-08-05 10:43:44 | 50 | |||||||
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Evolutionary Lineage Inferred from Structural Analysis Resource Report Resource Website 1+ mentions |
Evolutionary Lineage Inferred from Structural Analysis (RRID:SCR_002343) | data or information resource, database | THIS RESOURCE IS NO LONGER IN SERVICE, documented August 23, 2016. ELISA is an online database that combines functional annotation with structure and sequence homology modeling to place proteins into sequence-structure-function neighborhoods. The atomic unit of the database is a set of sequences and structural templates that those sequences encode. A graph that is built from the structural comparison of these templates is called PDUG (protein domain universe graph). It introduces a method of functional inference through a probabilistic calculation done on an arbitrary set of PDUG nodes. Further, all PDUG structures are mapped onto all fully sequenced proteomes allowing an easy interface for evolutionary analysis and research into comparative proteomics. ELISA is the first database with applicability to evolutionary structural genomics explicitly in mind. | evolutionary, function, functional, analysis, annotation, atomic unit, calculation, comparative, domain, genomic, homology, modeling, place, probabilistic, protein, protein domain and protein classification databases, proteome, proteomic, sequence, structural, structure, template | has parent organization: Boston University; Massachusetts; USA | PMID:12952559 | THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-21141 | SCR_002343 | ELISA | 2026-08-05 10:43:38 | 1 | |||||||
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Database of Transcribed Sequences Resource Report Resource Website 10+ mentions |
Database of Transcribed Sequences (RRID:SCR_002334) | data or information resource, database | DoTS (Database Of Transcribed Sequences) is a human and mouse transcript index created from all publicly available transcript sequences. The input sequences are clustered and assembled to form the DoTS Consensus Transcripts that comprise the index. These transcripts are assigned stable identifiers of the form DT.123456 (and are often referred to as dots). The transcripts are in turn clustered to form putative DoTS Genes. These are assigned stable identifiers of the form DG.1234356. As of September 1, 2004, the DoTS annotation team has manually annotated 43,164 human and 78,054 mouse DoTS Transcripts (DTs), corresponding to 3,939 human and 7,752 mouse DoTS Genes (DGs). Use the manually annotated gene query to see the DoTS Transcripts that have been manually annotated. The focus of the DoTS project is integrating the various types of data (e.g., EST sequences, genomic sequence, expression data, functional annotation) in a structured manner which facilitates sophisticated queries that are otherwise not easy to perform. DoTS is built on the GUS Platform which includes a relational database that uses controlled vocabularies and ontologies to ensure that biologically meaningful queries can be posed in a uniform fashion. An easy way to start using the site is to search for DoTS Transcripts using an existing cDNA or mRNA sequence. Click on the BLAST tab at the top of the page and enter your sequence in the form provided. All the transcripts with significant sequence similarity to your query sequence will be displayed. Or use one of the provided queries to retrieve transcripts using a number of criteria. These queries are listed on the query page, which can also be reached by clicking on the tab marked query at the top of the page. Finally, the boolean query page allows these queries to be combined in a variety of ways. Sponsors: Funding provided by -NIH grant RO1-HG-01539-03 -DOE grant DE-FG02-00ER62893 | expression, functional, gene, annotation, biological, cdna, genomic, human, index, model organisms and comparative genomics databases, mouse, mrna, sequence, structure, transcribed, transcript | has parent organization: University of Pennsylvania; Philadelphia; USA | nif-0000-21125 | SCR_002334 | DoTs | 2026-08-05 10:43:38 | 15 | |||||||||
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MachiBase Resource Report Resource Website 1+ mentions |
MachiBase (RRID:SCR_003078) | MachiBase | data or information resource, database | Database for Drosophila melanogaster transcription profiling that allows users to search the Drosophilia genome, see sequence overviews, and look at various transcripts. The data were generated in conjunction with the recently developed high-throughput genome sequencer Illumina / Solexa using a newly developed 5'-end mRNA collection method. Approximately 25 million 25-27 nucleotide (nt) 5'-end mRNA tags from the embryos, larvae, young males, young females, old males, old females, and S2 (culture cell line) of D. melanogaster were collected. By arranging this vast amount of expression tag with other annotated data, they have built a one-stop service for Drosophila melanogaster transcription profiling. | transcription profiling, genome, sequence, transcript, mrna, promoter, gene expression, development, embryo, larvae, young, male, female, old, s2, culture, cell line, expressed sequence tag, solexa |
is listed by: OMICtools has parent organization: University of Tokyo; Tokyo; Japan |
PMID:18842623 | Free, Available for download, Freely available | OMICS_01878, nif-0000-03092 | SCR_003078 | 2026-08-05 10:43:45 | 1 | |||||||
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TPA Resource Report Resource Website 1+ mentions |
TPA (RRID:SCR_003593) | TPA | data or information resource, database | Database designed to capture experimental or inferential results that support submitter-provided annotation for sequence data that the submitter did not directly determine but derived from GenBank primary data. Records are divided into two categories: * TPA:experimental: Annotation of sequence data is supported by peer-reviewed wet-lab experimental evidence. * TPA:inferential: Annotation of sequence data by inference (where the source molecule or its product(s) have not been the subject of direct experimentation) TPA records are retrieved through the Nucleotide Database and feature information on the sequence, how it was cataloged, and proper way to cite the sequence information. | gene, gene expression, nucleotide sequence, annotation, sequence |
is listed by: re3data.org is related to: GenBank is related to: NCBI Protein Database is related to: NCBI Nucleotide has parent organization: NCBI |
PMID:16901214 | nlx_157738, r3d100010506 | https://doi.org/10.17616/R3KS4H | SCR_003593 | Third Party Annotation, NCBI TPA, NCBI Third Party Annotation | 2026-08-05 10:43:53 | 4 | ||||||
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Human Experimental/FunctionAL MaPper: Providing Functional Maps of the Human Genome Resource Report Resource Website |
Human Experimental/FunctionAL MaPper: Providing Functional Maps of the Human Genome (RRID:SCR_003506) | HEFalMp | data or information resource, service resource, database | HEFalMp (Human Experimental/FunctionAL MaPper) is a tool developed by Curtis Huttenhower in Olga Troyanskaya's lab at Princeton University. It was created to allow interactive exploration of functional maps. Functional mapping analyzes portions of these networks related to user-specified groups of genes and biological processes and displays the results as probabilities (for individual genes), functional association p-values (for groups of genes), or graphically (as an interaction network). HEFalMp contains information from roughly 15,000 microarray conditions, over 15,000 publications on genetic and physical protein interactions, and several types of DNA and protein sequence analyses and allows the exploration of over 200 H. sapiens process-specific functional relationship networks, including a global, process-independent network capturing the most general functional relationships. Looking to download functional maps? Keep an eye on the bottom of each page of results: every functional map of any kind is generated with a Download link at the bottom right. Most functional maps are provided as tab-delimited text to simplify downstream processing; graphical interaction networks are provided as Support Vector Graphics files, which can be viewed using the Adobe Viewer, any recent version of Firefox, or the excellent open source Inkscape tool. | human, map, gene, functional, pathway, disease, genomic, analysis, microarray, dna, protein, sequence | has parent organization: Princeton University; New Jersey; USA | New Jersey Commission on Cancer Research ; PhRMA Foundation 2007RSGl9572; NIGMS R01 GM071966; NSF DBI-0546275; NSF IIS-0513552; NHGRI T32 HG003284; NIGMS P50 GM071508 |
PMID:19246570 | nif-0000-37186 | SCR_003506 | Human Experimental / FunctionAL MaPper, Human Experimental/FunctionAL MaPper | 2026-08-05 10:43:51 | 0 | ||||||
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NCBI Protein Database Resource Report Resource Website 500+ mentions |
NCBI Protein Database (RRID:SCR_003257) | NCBI_GP, NCBI Protein, NCBI GP | data or information resource, database | Databases of protein sequences and 3D structures of proteins. Collection of sequences from several sources, including translations from annotated coding regions in GenBank, RefSeq and TPA, as well as records from SwissProt, PIR, PRF, and PDB. | amino acid sequence, nucleotide, dna sequence, protein, sequence, sequence data, structure, function, dna, nucleotide sequence, genomics, protein binding, gold standard |
is used by: NIF Data Federation is listed by: re3data.org is related to: AmiGO is related to: GenBank is related to: RefSeq is related to: TPA is related to: UniProtKB is related to: Protein Information Resource is related to: Protein Research Foundation is related to: Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB PDB) is related to: BioExtract is related to: DIG IT - Database of Immunoglobulins and Integrated Tools has parent organization: NCBI |
Free, Freely available | SCR_017486, r3d100011331, nif-0000-03178 | http://www.ncbi.nlm.nih.gov/sites/entrez?db=protein, https://doi.org/10.17616/R3JH0X | SCR_003257 | Entrez Protein, Protein Database, NCBI Protein Database, Protein sequence database, Entrez Protein Database | 2026-08-05 10:43:48 | 963 | ||||||
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Mammalian Mitochondrial Genomics Database Resource Report Resource Website |
Mammalian Mitochondrial Genomics Database (RRID:SCR_003084) | MamMiBase | data or information resource, database | Database developed to assist the phylogeneticist user in retrieving individual gene sequence alignments for genes in complete mammalian mitochondrial genomes. Data retrieval in MamMiBase requires three stages. At the first stage, the user must select the mammalian species or group that (s)he wishes to study. In the second stage, the user will select the outgroup from a list that included all species selected in the first stage plus Xenopus laevis and Gallus gallus. Finally, at the third stage, the user will select individual mitochondrial gene alignments or a phylogenetic tree that (s)he wishes to download. | phylogeny, mitochondrial, genome, gene, sequence | has parent organization: National Laboratory for Scientific Computing; Rio de Janeiro; Brazil | Brazilian Ministry of Science Technology and Innovation ; National Research Council ; Rio de Janeiro Science Foundation ; FAPERJ |
PMID:15713730 | Free, Freely available | nif-0000-03099 | SCR_003084 | 2026-08-05 10:43:45 | 0 | ||||||
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TFSEARCH: Searching Transcription Factor Binding Sites Resource Report Resource Website 100+ mentions |
TFSEARCH: Searching Transcription Factor Binding Sites (RRID:SCR_004262) | data analysis service, production service resource, service resource, analysis service resource | The TFSEARCH searches highly correlated sequence fragments against TFMATRIX transcription factor binding site profile database in the "TRANSFAC" databases developed at GBF-Braunschweig, Germany. The TFSEARCH program was written by Yutaka Akiyama (Kyoto University, currently at RWCP) in 1995. | vertebrate, arthropod, plant, yeast, dna, sequence, FASEB list |
is related to: TFFACTOR has parent organization: Computational Biology Research Center Core Facility |
PMID:9399875 | nlx_27602 | http://www.cbrc.jp/research/db/TFSEARCH.html | SCR_004262 | TFSEARCH: DNA Transcription Factor Binding Site Prediction, Transcriptional Factor Search, TFSEARCH | 2026-08-05 10:44:00 | 214 | |||||||
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MG-RAST Resource Report Resource Website 1000+ mentions |
MG-RAST (RRID:SCR_004814) | MG RAST | data analysis service, production service resource, service resource, analysis service resource | An automated analysis platform for metagenomes providing quantitative insights into microbial populations based on sequence data. The server primarily provides upload, quality control, automated annotation and analysis for prokaryotic metagenomic shotgun samples. | metagenome, base pair, sequence, phylogenetic, functional analysis, data sharing, metadata, protein, micro biome, analysis platform, bio.tools |
is listed by: OMICtools is listed by: Human Microbiome Project is listed by: Debian is listed by: bio.tools has parent organization: Argonne National Laboratory |
NIAID contract HHSN272200900040C; DOE contract DE-AC02-06CH11357 |
PMID:18803844 | Acknowledgement requested, Public, Account required | OMICS_01456, biotools:mg-rast | http://metagenomics.nmpdr.org, https://bio.tools/mg-rast | SCR_004814 | The Metagenomics RAST server, Metagenomics RAST, MG-RAST - metagenomics analysis server | 2026-08-05 10:44:06 | 1137 | ||||
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T4-like genome database Resource Report Resource Website 10+ mentions |
T4-like genome database (RRID:SCR_005367) | data or information resource, database | THIS RESOURCE IS NO LONGER IN SERVICE, documented August 22, 2016. A database of information on bacterial phages. It contains multiple phage genomes, which users can BLAST and MegaBLAST, and also hosts a Phage Forum in which users can discuss phage data. Interactive browsing of completed phage genomes is available using the program. The browser allows users to scan the genome for particular features and to download sequence information plus analyses of those features. Views of the genome are generated showing named genes BLAST similarities to other phages predicted tRNAs and other sequence features. | electron micrograph, genbank data, alignment to ortholog, blast server, dna sequence, genomics database, hydropathy plot, interactive sequence, non-vertebrate, pfam protein domain, protein sequence, protein statistics, sequence, t4-like bacteriophage genome, tulane t4-like sequencing project, viral genome database | has parent organization: Tulane University; Louisiana; USA | THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-03532 | http://phage.ggc.edu/ | SCR_005367 | T4-like genome database | 2026-08-05 10:44:14 | 14 | |||||||
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Plant Genome Resource at JGI Resource Report Resource Website |
Plant Genome Resource at JGI (RRID:SCR_005315) | JGI Plant Genomics Program | data or information resource, database | The goal of the DOE JGI Plant Genome Program is to shed light on the fundamental biology of photosynthesis and transduction of solar to chemical energy. Other areas of interest include characterizing: * Ecosystems and the role of terrestrial plants and oceanic phytoplankton-in carbon sequestration. * The role of plants in coping with toxic pollutants in soils by hyper-accumulation and detoxification. * Feedstocks for biofuels, e.g., biodiesel from soybean; cellulosic ethanol from perennial grasses. * The ability to respond to environmental change (e.g., loss of diversity from monoculture produces vulnerabilities; nitrogen fixing nodules in legumes reduce fertilizer need). * The generation of useful secondary metabolites (produced largely for disease resistance)- for positive/negative control in agriculture, with attendant influence on global carbon cycle. The Plant Genome Program accomplishes the above through the following activities: # Sequence. Produce genome sequences of key plant (and algal) species to accelerate biofuel development and understand response to climate change. # Function. Develop datasets (and synthetic biology tools) to elucidate functional elements in plant genomes, with special focus on handful of flagship genomes. # Variation. Characterize natural genomic variation in plants (and their associated microbiomes), and relate to biofuel sustainability and adaptation to climate change. # Integration. Provide a centralized hub for the retrieval and deep integrated analysis of plant genome datasets. | plant, genomics, genome, photosynthesis, sequence | has parent organization: DOE Joint Genome Institute | DOE | nlx_144370 | SCR_005315 | Plant Genomics Program at JGI, DOE JGI Plant Genome Program, Plant Genomics Program - Capturing Light to Fuel Our Future | 2026-08-05 10:44:13 | 0 | |||||||
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STRING Resource Report Resource Website 10000+ mentions |
STRING (RRID:SCR_005223) | STRING | data or information resource, database | Database of known and predicted protein interactions. The interactions include direct (physical) and indirect (functional) associations and are derived from four sources: Genomic Context, High-throughput experiments, (Conserved) Coexpression, and previous knowledge. STRING quantitatively integrates interaction data from these sources for a large number of organisms, and transfers information between these organisms where applicable. The database currently covers 5''214''234 proteins from 1133 organisms. (2013) | protein association, protein functional association, protein interaction, protein-protein interaction, protein, sequence, protein sequence, interaction, gene, FASEB list |
is used by: MobiDB is used by: PAXdb is listed by: Nuclear Receptor Signaling Atlas is listed by: NIDDK Information Network (dkNET) is related to: Biomine is related to: PSICQUIC Registry is related to: ShinyGO has parent organization: European Molecular Biology Laboratory has plug in: Cytoscape StringApp |
BMBF ; European Union FP6 ; EMBO ; ProBioC ; Swiss Institute of Bioinformatics |
PMID:23203871 PMID:21045058 PMID:18940858 PMID:17098935 PMID:15608232 PMID:12519996 |
nif-0000-03503, r3d100010604 | https://doi.org/10.17616/R3VS40 | SCR_005223 | Search Tool for the Retrieval of Interacting Genes/Proteins, STRING - Known and Predicted Protein-Protein Interactions | 2026-08-05 10:44:12 | 29246 | |||||
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Human Splicing Finder Resource Report Resource Website 500+ mentions |
Human Splicing Finder (RRID:SCR_005181) | HSF | data analysis service, production service resource, service resource, analysis service resource | Software tool to help study pre-mRNA splicing and to better understand intronic and exonic mutations leading to splicing defects. To calculate the consensus values of potential splice sites and search for branch points, new algorithms were developed. Furthermore, they have integrated all available matrices to identify exonic and intronic motifs, as well as new matrices to identify hnRNP A1, Tra2-? and 9G8. | splicing, mutation, splicing signal, sequence, transcript, nucleotide, exon, bio.tools |
is listed by: OMICtools is listed by: bio.tools is listed by: Debian is related to: Ensembl has parent organization: National Institute of Health and Medical Research; Rennes; France |
PMID:19339519 | Acknowledgement requested | biotools:human_splicing_finder, OMICS_00176 | https://bio.tools/human_splicing_finder | http://www.umd.be/HSF/ | SCR_005181 | 2026-08-05 10:44:12 | 963 | |||||
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MIPModDB Resource Report Resource Website 1+ mentions |
MIPModDB (RRID:SCR_006058) | MIPModDB | data or information resource, database | This is a database of comparative protein structure models of MIP (Major Intrinsic Protein) family of proteins. The nearly completed sets of MIPs have been identified from the completed genome sequence of organisms available at NCBI. The structural models of MIP proteins were created by defined protocol. The database aims to provide key information of MIPs in particular based on sequence as well as structures. This will further help to decipher the function of uncharacterized MIPs. For each MIP entry, this database contains information about the source, gene structure, sequence features, substitutions in the conserved NPA motifs, structural model, the residues forming the selectivity filter and channel radius profile. For selected set of MIPs, it is possible to derive structure-based sequence alignment and evolutionary relationship. Sequences and structures of selected MIPs can be downloaded from MIPModDB database. | major intrinsic protein, model, protein structure, structural model, sequence, structure, superfamily, genome sequence, amino acid sequence, motif, bio.tools |
is listed by: Debian is listed by: bio.tools has parent organization: Indian Institute of Technology Kanpur; Uttar Pradesh; India |
Government of India | PMID:22080560 | Free | nlx_151460, biotools:mipmoddb | https://bio.tools/mipmoddb | SCR_006058 | Major Intrinsic Protein superfamily Models, MIPModDB - Major Intrinsic Protein superfamily Models | 2026-08-05 10:44:25 | 6 | ||||
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PRED-CLASS Resource Report Resource Website |
PRED-CLASS (RRID:SCR_006216) | PRED-CLASS | data analysis service, production service resource, service resource, analysis service resource | A system of cascading neural networks that classifies any protein, given its amino acid sequence alone, into one of four possible classes: membrane, globular, fibrous, mixed. | classification, protein, fibrous, globular, protein class, membrane, sequence, algorithm, protein classification, neural network, transmembrane, genome annotation, genome-wide analysis |
is related to: DAM-Bio has parent organization: University of Athens Biophysics and Bioinformatics Laboratory |
European Union ERBFMRXCT960019 | PMID:11455609 | nlx_151762 | SCR_006216 | PRED-CLASS - Classification of proteins into one of four possible classes | 2026-08-05 10:44:24 | 0 |
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