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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
PerlPrimer Resource Report Resource Website 100+ mentions |
PerlPrimer (RRID:SCR_012038) | software application, software resource | A free, open-source GUI software application written in Perl that designs primers for standard PCR, bisulphite PCR, real-time PCR (QPCR) and sequencing. |
is listed by: OMICtools is listed by: Debian has parent organization: SourceForge |
PMID:15073005 DOI:10.1093/bioinformatics/bth254 |
Open unspecified license | OMICS_02354 | https://sources.debian.org/src/perlprimer/ | SCR_012038 | PerlPrimer - open-source PCR primer design | 2026-09-12 01:02:47 | 247 | |||||||
|
PoolHap Resource Report Resource Website |
PoolHap (RRID:SCR_012129) | software application, software resource, standalone software | Software tool for inferring haplotypes from pooled sequencing. Enables to infer strain numbers and haplotype frequencies in silico from sequences of pooled samples. | inferring haplotypes, pooled sequencing, haplotype frequencies, infer strain numbers, pooled samples sequences, bio.tools |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools has parent organization: Google Code |
PMID:21264334 | Free, Available for download, Freely available | biotools:poolhap, OMICS_05832 | https://bio.tools/poolhap | SCR_012129 | Inferring Haplotype frequencies from Pooled sequencing, poolhap2, PoolHap2 | 2026-09-12 01:02:48 | 0 | ||||||
|
Search Tool for Interactions of Chemicals Resource Report Resource Website 1000+ mentions |
Search Tool for Interactions of Chemicals (RRID:SCR_007947) | STITCH | data or information resource, database | Database to explore known and predicted interactions of chemicals and proteins. It integrates information about interactions from metabolic pathways, crystal structures, binding experiments and drug-target relationships. Inferred information from phenotypic effects, text mining and chemical structure similarity is used to predict relations between chemicals. STITCH further allows exploring the network of chemical relations, also in the context of associated binding proteins. Each proposed interaction can be traced back to the original data sources. The database contains interaction information for over 68,000 different chemicals, including 2200 drugs, and connects them to 1.5 million genes across 373 genomes and their interactions contained in the STRING database. | drug-target relationship, chemical, chemical-protein interaction, chemical relationship, crystal structure, metabolic pathway interaction, protein, interaction, small molecule, drug, interaction network, FASEB list |
is listed by: OMICtools is related to: Integrated Molecular Interaction Database has parent organization: European Molecular Biology Laboratory |
BMBF ; European Union FP6 EMBO ; ProBioC |
PMID:22075997 PMID:19897548 PMID:18084021 |
r3d100012165, OMICS_01589, nif-0000-03499 | https://doi.org/10.17616/R3606X, https://doi.org/10.17616/R3606X | SCR_007947 | STITCH: Chemical-Protein Interactions | 2026-09-12 01:01:56 | 1054 | |||||
|
Transterm Resource Report Resource Website 10+ mentions |
Transterm (RRID:SCR_008244) | data or information resource, database | Database that provides access to mRNA sequences and associated regulatory elements that were processed from Genbank. These mRNA sequences include complete genomes, which are divided into 5-prime UTRs, 3-prime UTRs, initiation sequences, termination regions and full CDS sequences. This data can be searched for a range of properties including specific mRNA sequences, mRNA motifs, codon usage, RSCU values, information content, etc. | element, gene, 3' utr, 5' utr, codon, genome, genomic, initiation, motif, mrna, nucleotide sequences, transcriptional regulator sites, transcription factors databases, region, regulatory, rna sequence, species, termination |
is listed by: Debian is listed by: OMICtools has parent organization: University of Otago; Dunedin; New Zealand |
DOI:10.1186/gb-2007-8-2-r22 | Public | nif-0000-21399, OMICS_06165 | https://sources.debian.org/src/transtermhp/ | http://uther.otago.ac.nz/Transterm.html | SCR_008244 | 2026-09-12 01:01:59 | 17 | ||||||
|
OMICS! OMICS! Resource Report Resource Website |
OMICS! OMICS! (RRID:SCR_008533) | OMICS! OMICS! | blog, data or information resource, narrative resource | A computational biologist''s personal views on new technologies & publications on genomics & proteomics and their impact on drug discovery. | is listed by: OMICtools | OMICS_01719 | SCR_008533 | 2026-09-12 01:02:00 | 0 | ||||||||||
|
Exon Array Analyzer Resource Report Resource Website 1+ mentions |
Exon Array Analyzer (RRID:SCR_008684) | Exon Array Analyzer | analysis service resource, data analysis service, production service resource, service resource | Service that allows you to process CEL files from Affymetrix, Inc. GeneChip Exon 1.0 ST Arrays to identify alternative splicing. | is listed by: OMICtools | OMICS_00754 | SCR_008684 | 2026-09-12 01:02:01 | 4 | ||||||||||
|
Omixon blog Resource Report Resource Website |
Omixon blog (RRID:SCR_010020) | Omixon blog | blog, data or information resource, narrative resource | We share commentaries, news and announcement that advance our goal of helping clinical labs to adopt next generation sequencing for the analysis of diagnostic gene targets. | is listed by: OMICtools | OMICS_01720 | SCR_010020 | 2026-09-12 01:02:02 | 0 | ||||||||||
|
CPSS Resource Report Resource Website 10+ mentions |
CPSS (RRID:SCR_009395) | CPSS | analysis service resource, data analysis service, production service resource, service resource | Computational Platform for analysis of Small RNA deep Sequencing data BioStaCs group., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | is listed by: OMICtools | PMID:22576177 | THIS RESOURCE IS NO LONGER IN SERVICE | OMICS_00355 | SCR_009395 | 2026-09-12 01:02:02 | 23 | ||||||||
|
TarBase Resource Report Resource Website 500+ mentions |
TarBase (RRID:SCR_010841) | DIANA-TarBase | data or information resource, database, service resource | Manually curated database of experimentally supported animal microRNA targets. Collection of experimentally supported miRNA gene interactions. | mirna-gene interaction |
is listed by: OMICtools is provided by: DIANA Tools |
Fondation Santé Grant ; General Secretariat of Research and Technology ; Greece Grant ; Hellenic Foundation for Research and Innovation ; IKY Foundation |
PMID:22135297 PMID:29156006 |
Restricted | OMICS_00397 | http://carolina.imis.athena-innovation.gr/diana_tools/web/index.php?r=tarbasev8%2Findex/ | SCR_010841 | DIANA-TarBase v7.0, DIANA-TarBase v.8, DIANA-TarBase v.6 | 2026-09-12 01:02:06 | 869 | ||||
|
SNPs3D Resource Report Resource Website 100+ mentions |
SNPs3D (RRID:SCR_010787) | SNPs3D | data or information resource, database | A website which assigns molecular functional effects of non-synonymous SNPs based on structure and sequence analysis. | single nucleotide polymorphism, single nucleotide variation, gene, FASEB list |
is listed by: OMICtools has parent organization: University of Maryland; Maryland; USA |
NLM | The community can contribute to this resource | OMICS_00163 | SCR_010787 | 2026-09-12 01:02:06 | 117 | |||||||
|
omiRas Resource Report Resource Website 10+ mentions |
omiRas (RRID:SCR_010833) | omiRas | analysis service resource, data analysis service, production service resource, service resource | A web server for the annotation, comparison and visualization of interaction networks of non-coding RNAs derived from small RNA-Sequencing experiments of two different conditions. | bio.tools |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools |
PMID:23946503 | biotools:omiras, OMICS_00383 | https://bio.tools/omiras | SCR_010833 | 2026-09-12 01:02:06 | 14 | |||||||
|
CGHweb Resource Report Resource Website 10+ mentions |
CGHweb (RRID:SCR_010923) | CGHweb | analysis service resource, data analysis service, production service resource, service resource | Data analysis service enabling users to analyse their array-CGH data with multiple algorithms simultaneously. |
is listed by: OMICtools has parent organization: Harvard Medical School; Massachusetts; USA |
OMICS_00713 | SCR_010923 | 2026-09-12 01:02:06 | 12 | ||||||||||
|
Align-GVGD Resource Report Resource Website 50+ mentions |
Align-GVGD (RRID:SCR_010772) | Align-GVGD | analysis service resource, data analysis service, production service resource, service resource | A freely available, web-based program that combines the biophysical characteristics of amino acids and protein multiple sequence alignments to predict where missense substitutions in genes of interest fall in a spectrum from enriched delterious to enriched neutral. | is listed by: OMICtools | Free | OMICS_00125 | SCR_010772 | 2026-09-12 01:02:06 | 93 | |||||||||
|
PlanTAPDB Resource Report Resource Website |
PlanTAPDB (RRID:SCR_010897) | PlanTAPDB | data or information resource, database | A phylogeny-based comprehensive database of plant transcription associated proteins. | is listed by: OMICtools | PMID:17337525 | Free | OMICS_00558 | SCR_010897 | 2026-09-12 01:02:06 | 0 | ||||||||
|
MutationTaster Resource Report Resource Website 1000+ mentions |
MutationTaster (RRID:SCR_010777) | MutationTaster | analysis service resource, data analysis service, production service resource, service resource | Evaluates disease-causing potential of sequence alterations. | bio.tools |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools is listed by: SoftCite |
PMID:20676075 | Acknowledgement requested | biotools:mutation_taster, OMICS_00153 | https://bio.tools/mutation_taster | SCR_010777 | 2026-09-12 01:02:06 | 4781 | ||||||
|
Genomic HyperBrowser Resource Report Resource Website 10+ mentions |
Genomic HyperBrowser (RRID:SCR_010909) | Genomic HyperBrowser | analysis service resource, data analysis service, production service resource, service resource | A generic web-based system, providing statistical methodology and computing power to handle a variety of biological inquires on genomic datasets. | genomic, genomic track, gene regulation, disease association, epigenetic modification, genome |
is listed by: OMICtools has parent organization: University of Oslo; Oslo; Norway |
PMID:23632163 PMID:21182759 |
OMICS_00638 | SCR_010909 | The Genomic HyperBrowser | 2026-09-12 01:02:06 | 20 | |||||||
|
UCSC Cancer Genomics Browser Resource Report Resource Website 500+ mentions |
UCSC Cancer Genomics Browser (RRID:SCR_011796) | Cancer Genomics Browser | data or information resource, database, service resource | A suite of web-based tools to visualize, integrate and analyze cancer genomics and its associated clinical data. It is possible to display your own clinical data within one of their datasets. | genome, genomics, clinical, next-generation sequencing, chromosome, gene, FASEB list |
is listed by: OMICtools has parent organization: University of California at Santa Cruz; California; USA |
Cancer | NCI ; NHGRI ; American Association for Cancer Research ; UCSF Comprehensive Cancer Center ; California Institute for Quantitative Biosciences |
PMID:23109555 PMID:21059681 PMID:19333237 |
Acknowledgement requested | OMICS_00925 | SCR_011796 | 2026-09-12 01:02:06 | 589 | |||||
|
WU-BLAST Resource Report Resource Website 100+ mentions |
WU-BLAST (RRID:SCR_011824) | WU-BLAST | analysis service resource, data analysis service, production service resource, service resource | Tool to find regions of sequence similarity within selected protein databases quickly, with minimum loss of sensitivity. | protein, dna, rna |
is listed by: OMICtools is listed by: SoftCite has parent organization: European Bioinformatics Institute |
OMICS_01001 | SCR_011824 | 2026-09-12 01:02:06 | 135 | |||||||||
|
CancerResource Resource Report Resource Website 1+ mentions |
CancerResource (RRID:SCR_011945) | data or information resource, database | Comprehensive database of cancer relevant proteins and compound interactions supported by experimental knowledge.Knowledgebase for drug-target relationships related to cancer as well as for supporting information or experimental data. | compound, drug, target gene, cancer relevant proteins, compound interactions, drug-target relationships, bio.tools |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools |
Cancer | DFG ; European Union ; Federal Ministry of Education and Research BMBF ; International Research Training Group IRTG |
PMID:20952398 | Free, Freely available | biotools:cancerresource, OMICS_01576 | https://bio.tools/cancerresource | http://bioinf-data.charite.de/cancerresource/index.php?site=home | SCR_011945 | 2026-09-12 01:02:07 | 5 | ||||
|
Blue Collar Bioinformatics Resource Report Resource Website 1+ mentions |
Blue Collar Bioinformatics (RRID:SCR_012913) | Blue Collar Bioinformatics | blog, data or information resource, narrative resource | This blog will appeal to those dealing with the practical day to day work of biological data analysis and presentation. | is listed by: OMICtools | OMICS_01712 | SCR_012913 | 2026-09-12 01:02:08 | 1 |
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