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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
Conservation Resource Report Resource Website 1000+ mentions |
Conservation (RRID:SCR_016064) | software application, software toolkit, software resource | Software for scoring protein sequence conservation using the Jensen-Shannon divergence. It can be used to predict catalytic sites and residues near bound ligands. | scoring, protein, sequence, conservation, Jensen-Shannon, divergence, predict, catalytic, site, bound, ligands, clustal, fasta, concave | is related to: Princeton University; New Jersey; USA | NIH T32 HG003284; NSF IIS-0612231; NSF PECASE MCB-0093399; NIGMS GM076275; NIH P50 GM071508 |
PMID:17519246 | Free, Available for download | SCR_016064 | Conservation-code | 2026-07-28 09:44:04 | 1564 | |||||||
|
Mash Resource Report Resource Website 50+ mentions |
Mash (RRID:SCR_019135) | software application, data analytics software, software resource | Software tool for genome and metagenome distance estimation using MinHash. Reduces large sequences and sequence sets to small, representative sketches, from which global mutation distances can be rapidly estimated. | Genome distance estimation, metagenome distance estimation, MinHash, mutation distance, sequence, sequence set |
is listed by: Debian is listed by: OMICtools |
NHGRI ; NIH |
PMID:27323842 | Free, Available for download, Freely available | OMICS_10468 | https://mash.readthedocs.io/en/latest/, https://sources.debian.org/src/mash/ | SCR_019135 | 2026-07-28 09:44:56 | 54 | ||||||
|
Sainsbury Laboratory Bioinformatics Core Facility Resource Report Resource Website 1+ mentions |
Sainsbury Laboratory Bioinformatics Core Facility (RRID:SCR_017185) | TSL Bioinformatics | access service resource, service resource, core facility | Core develops tools for high throughput sequence data to study non reference, non model organisms. | bioinformatics, high, throughput, sequence, data, non reference, non model, organism | Open | SCR_017185 | TSL, Core Facility, The Sainsbury Laboratory, Bioinformatics | 2026-07-28 09:44:31 | 2 | |||||||||
|
Stanford Diabetes Research Center Diabetes Genomics Analysis Core Resource Report Resource Website 1+ mentions |
Stanford Diabetes Research Center Diabetes Genomics Analysis Core (RRID:SCR_016213) | GDAC, SDRC-GDAC, SDRC | access service resource, service resource, core facility | Core facility that offers library preparation and sequencing services on a variety of platforms - Illumina HiSeq 4000, MiSeq, HiSeq 2500 and PacBio Sequel - as well as bioinformatics analysis. It can sequence a variety of commercial sample preparation kits as well as custom workflows. DGAC provides access to high throughput sequencing and analysis to researchers at the Stanford Diabetes Research Center. | library, sequence, workflow, bioinformatic, gene, analysis, sequencing |
is related to: Stanford Diabetes Research Center Diabetes Immune Monitoring Core is related to: Stanford Diabetes Research Center Stanford Islet Research Core is related to: Stanford Diabetes Research Center Diabetes Clinical and Translational Core has parent organization: Stanford University; Stanford; California is organization facet of: Stanford Diabetes Research Center |
NIDDK P30 DK116074 | Available to external user | SCR_016213 | SDRC, Genomics Analysis Core, Diabetes Genomics Analysis Core | 2026-07-28 09:44:12 | 1 | |||||||
|
SeqEM Resource Report Resource Website 1+ mentions |
SeqEM (RRID:SCR_002021) | software application, web application, data analysis software, algorithm resource, sequence analysis software, software resource, data processing software | Online tool for utilizing a genotype calling algorithm for next-generation sequence data. | genotype, algorithm, sequence, rna, dna, bio.tools |
is listed by: OMICtools is listed by: bio.tools is listed by: Debian has parent organization: University of Miami Miller School of Medicine; Florida; USA |
PMID:20861027 | THIS RESOURCE IS NO LONGER IN SERVICE | OMICS_00074, biotools:seqem | https://bio.tools/seqem | SCR_002021 | 2026-07-28 09:40:19 | 1 | |||||||
|
RNA Ontology Resource Report Resource Website 1+ mentions |
RNA Ontology (RRID:SCR_003470) | RNAO | controlled vocabulary, data or information resource, ontology | An ontology to capture all aspects of RNA - from primary sequence to alignments, secondary and tertiary structure from base pairing and base stacking to sophisticated motifs. | owl, obo, molecular structure, molecular, rna, sequence, alignment, structure, base pairing, base stacking, motif |
is listed by: BioPortal is listed by: OBO is listed by: Google Code |
Free, Available for download, Freely available | nlx_157566 | http://purl.bioontology.org/ontology/RNAO, http://rnao.googlecode.com/svn/trunk/rnao.obo | SCR_003470 | 2026-07-28 09:40:48 | 1 | |||||||
|
Influenza Ontology Resource Report Resource Website |
Influenza Ontology (RRID:SCR_003346) | FLU | controlled vocabulary, data or information resource, ontology | An application ontology established by a collaborative group of influenza researchers that includes consolidated influenza sequence and surveillance terms from resources such as the BioHealthBase (BHB), a Bioinformatics Resource Center (BRC) for Biodefense and Emerging and Re-emerging Infectious Diseases, the Centers for Excellence in Influenza Research and Surveillance (CEIRS) | owl, health, pathological, organismal, cellular, sequence, surveillance |
is listed by: BioPortal is listed by: OBO is related to: Information Artifact Ontology has parent organization: University of Maryland; Maryland; USA |
Influenza | Free, Freely available | nlx_157440 | http://purl.obolibrary.org/obo/flu.owl, http://influenzaontologywiki.igs.umaryland.edu/ | http://purl.bioontology.org/ontology/FLU | SCR_003346 | 2026-07-28 09:40:40 | 0 | |||||
|
COnsensus-DEgenerate Hybride Oligonucleotide Primers Resource Report Resource Website 1+ mentions |
COnsensus-DEgenerate Hybride Oligonucleotide Primers (RRID:SCR_002875) | software application, service resource, data analysis software, data analysis service, data processing software, software resource, production service resource, analysis service resource | This COnsensus-DEgenerate Hybrid Oligonucleotide Primer (CODEHOP) strategy has been implemented as a computer program that is accessible over the World-Wide Web and is directly linked from the BlockMaker multiple sequence alignment site for hybrid primer prediction beginning with a set of related protein sequences. This is a new primer design strategy for PCR amplification of unknown targets that are related to multiply-aligned protein sequences. Each primer consists of a short 3' degenerate core region and a longer 5' consensus clamp region. Only 3-4 highly conserved amino acid residues are necessary for design of the core, which is stabilized by the clamp during annealing to template molecules. During later rounds of amplification, the non-degenerate clamp permits stable annealing to product molecules. The researchers demonstrate the practical utility of this hybrid primer method by detection of diverse reverse transcriptase-like genes in a human genome, and by detection of C5 DNA methyltransferase homologs in various plant DNAs. In each case, amplified products were sufficiently pure to be cloned without gel fractionation. Sponsors: This work was supported in part by a grant from the M. J. Murdock Charitable Trust and by a grant from NIH. S. P. is a Howard Hughes Medical Institute Fellow of the Life Sciences Research Foundation., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on January 15,2026. | fractionation, gel, 3', amplification, clone, dna, genome, homolog, human, hybrid, molecule, oligonucleotide, pcr, plant, primer, protein, sequence, transcriptase-methyltransferase |
is related to: OMICtools has parent organization: University of Washington; Seattle; USA |
THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-25557 | SCR_002875 | CODEHOP | 2026-07-28 09:40:32 | 8 | ||||||||
|
AltaiR Resource Report Resource Website 1+ mentions |
AltaiR (RRID:SCR_024752) | software application, data analysis software, software resource, data processing software, data visualization software, data compression software | Software C toolkit for alignment free and spatial temporal analysis of multi-FASTA data. Used for entangling presence of multiple sequences from epidemic and pandemic events. | alignment free, spatial temporal analysis, multi-FASTA data, sequence, analysis, multiple sequences entangling presence, , FASTA format, epidemic and pandemic events, | European Commision 101081813; Genomic Data Infrastructure Fundação para a Ciência e a Tecnologia; CEECINST/00026/2018 Fundação para a Ciência e a Tecnologia |
Free, Available for download, Freely available | SCR_024752 | 2026-07-28 09:46:10 | 2 | ||||||||||
|
FungiLT Resource Report Resource Website |
FungiLT (RRID:SCR_025886) | software application, source code, software resource | Software classifier tool based on deep learning methods for classification and annotation of large-scale fungal ITS sequences. Used for fungal species classification. | fungal species classification, classifier, classification, annotation, large-scale fungal ITS sequences, fungal ITS sequences, fungal, sequence | Free, Available for download, Freely available | SCR_025886 | 2026-07-28 09:46:29 | 0 |
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