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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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JOINMAP Resource Report Resource Website 1000+ mentions |
JOINMAP (RRID:SCR_009248) | JOINMAP | software application, software resource | Software application for construction of genetic linkage maps for several types of mapping populations: BC1, F2, RILs, (doubled) haploids, outbreeders full-sib family. Can combine (''join'') data derived from several sources into an integrated map. Further: linkage group determination, automatic phase determination for outbreeders full-sib family, several diagnostics, and map charts. Everything available in an intuitive MS-Windows user interface. (entry from Genetic Analysis Software) | gene, genetic, genomic, ansi c, delphi, ms-windows, (95/98/me/nt4.0/2000) | is listed by: Genetic Analysis Software | nlx_154416 | SCR_009248 | Software for the calculation of genetic linkage maps | 2026-08-29 11:30:57 | 1072 | ||||||||
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IMPUTE Resource Report Resource Website 500+ mentions |
IMPUTE (RRID:SCR_009245) | IMPUTE | software application, software resource | Software application for estimating (imputing) unobserved genotypes in SNP association studies. The program is designed to work seamlessly with the output of the genotype calling program CHIAMO and the population genetic simulator HAPGEN, and it produces output that can be analyzed using the program SNPTEST. (entry from Genetic Analysis Software) | gene, genetic, genomic |
is listed by: Genetic Analysis Software is listed by: SoftCite |
nlx_154411 | SCR_009245 | 2026-08-29 11:31:08 | 639 | |||||||||
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MDR-PDT Resource Report Resource Website 1+ mentions |
MDR-PDT (RRID:SCR_009243) | MDR-PDT | software application, software resource | Software application (entry from Genetic Analysis Software) | gene, genetic, genomic | is listed by: Genetic Analysis Software | nlx_154406 | SCR_009243 | Multifactor Dimensionality Reduction and genotype Pedigree Disequilibrium Test | 2026-08-29 11:31:08 | 2 | ||||||||
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INTERSNP Resource Report Resource Website 10+ mentions |
INTERSNP (RRID:SCR_009244) | INTERSNP | software application, software resource | Software application for genome-wide interaction analysis (GWIA) of case-control SNP data. SNPs are selected for joint analysis using a priori information. Sources of information to define meaningful strategies can be statistical evidence (single marker association at a moderate level, computed from the own data) and genetic/biologic relevance (genomic location, function class or pathway information). (entry from Genetic Analysis Software) | gene, genetic, genomic, c/c++, unix, ms-windows, macos | is listed by: Genetic Analysis Software | nlx_154409 | SCR_009244 | genome-wide association and INTERaction analysis of SNP | 2026-08-29 11:30:57 | 18 | ||||||||
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HTSNPER Resource Report Resource Website 1+ mentions |
HTSNPER (RRID:SCR_009242) | HTSNPER | software application, software resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on January 4, 2023.Java program for characterizing the haplotype block structure and selecting haplotype tagging SNP (entry from Genetic Analysis Software) | gene, genetic, genomic, c++, jvm, ms-windows, linux | is listed by: Genetic Analysis Software | PMID:15740612 | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_154403 | SCR_009242 | Haplotype Tagging SNPer | 2026-08-29 11:31:06 | 2 | ||||||
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HS-TDT Resource Report Resource Website 1+ mentions |
HS-TDT (RRID:SCR_009240) | HS-TDT | software application, software resource | Software application for testing association using tightly linked markers in nuclear pedigrees (entry from Genetic Analysis Software) | gene, genetic, genomic, unix, ms-windows, bio.tools |
is listed by: Genetic Analysis Software is listed by: bio.tools is listed by: Debian |
nlx_154401, biotools:hs-tdt | https://bio.tools/hs-tdt | SCR_009240 | Haplotype Sharing Transmission Disequilibrium Test | 2026-08-29 11:31:08 | 4 | |||||||
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MARGARITA Resource Report Resource Website 1+ mentions |
MARGARITA (RRID:SCR_009279) | MARGARITA | software application, software resource | Software application that infers genealogies from population genotype data and uses these to map disease loci. These genealogies take the form of the Ancestral Recombination Graph (ARG). The ARG defines a genealogical tree for each locus, and as one moves along the chromosome the topologies of consecutive trees shift according to the impact of historical recombination events. (entry from Genetic Analysis Software) | gene, genetic, genomic, java | is listed by: Genetic Analysis Software | nlx_154460 | SCR_009279 | 2026-08-29 11:31:09 | 2 | |||||||||
|
MAPINSPECT Resource Report Resource Website 100+ mentions |
MAPINSPECT (RRID:SCR_009277) | MAPINSPECT | software application, software resource | Software application that can be used to compare linkage maps obtained from different sources/populations/etc.. It will draw the linkage maps and look for common marker names, these are then connected in the drawing with dashed lines. All neighboring maps are compared in this way. Images can be printed and saved. Orders of the MAPs (ie which map is compared with which other map) can be changed and maps can be flipped (right mouse button). remark: MapComp bears close relationships with the GGT software package (entry from Genetic Analysis Software), THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | gene, genetic, genomic, delphi pascal, ms-window (32-bit) | is listed by: Genetic Analysis Software | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_154458 | SCR_009277 | GGT | 2026-08-29 11:31:07 | 324 | |||||||
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MAPDISTO Resource Report Resource Website 100+ mentions |
MAPDISTO (RRID:SCR_009275) | MAPDISTO | software application, software resource | Software program for mapping genetic markers in experimental segregating populations like backcross, doubled haploids, single-seed descent. Its specificity is to propose recombination fraction estimates in case of segregation distortion. It can (1) compute and draw genetic maps easily and quickly through a graphical interface; (2) facilitate the analysis of marker data showing segregation distortion due to differential viability of gametes or zygotes. (entry from Genetic Analysis Software), THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | gene, genetic, genomic, ms-excel | is listed by: Genetic Analysis Software | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_154456 | SCR_009275 | 2026-08-29 11:30:57 | 116 | ||||||||
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MAP/MAP+/MAP+H/MAP2000 Resource Report Resource Website |
MAP/MAP+/MAP+H/MAP2000 (RRID:SCR_009272) | MAP/MAP+/MAP+H/MAP2000 | software application, software resource | Software application for multiple pairwise linkage analysis under interference (entry from Genetic Analysis Software) | gene, genetic, genomic, fortran, unix, sunos | is listed by: Genetic Analysis Software | nlx_154453 | SCR_009272 | (MAP+H is the radiation Hybrid module of MAP+) | 2026-08-29 11:30:57 | 0 | ||||||||
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MANTEL-STRUCT Resource Report Resource Website 1+ mentions |
MANTEL-STRUCT (RRID:SCR_009271) | MANTEL-STRUCT | software application, software resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on May 16,2023. Software application that tests for population structure through the use of Mantel tests (entry from Genetic Analysis Software) | gene, genetic, genomic, ms-windows | is listed by: Genetic Analysis Software | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_154451 | SCR_009271 | 2026-08-29 11:31:09 | 4 | ||||||||
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MALDSOFT Resource Report Resource Website |
MALDSOFT (RRID:SCR_009269) | MALDSOFT | software application, software resource | Software program for admixture mapping of complex trait loci, using case-control data. The samples should come from a recently-admixed population; additional ''learning'' samples from the parental populations are helpful. (entry from Genetic Analysis Software) | gene, genetic, genomic, unix, linux, ms-windows, (dos/window...) | is listed by: Genetic Analysis Software | nlx_154449 | SCR_009269 | 2026-08-29 11:30:57 | 0 | |||||||||
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LRTAE Resource Report Resource Website 1+ mentions |
LRTAE (RRID:SCR_009265) | LRTAE | software application, software resource | Software application to compute a likelihood ratio test statistic that increases power to detect genetic association in the presence of phenotype, genotype, and/or haplotype misclassification errors. In addition, the program produces asymptotically unbiased estimates of frequency parameters. (entry from Genetic Analysis Software) | gene, genetic, genomic, c, ms-windows, unix, solaris, linux | is listed by: Genetic Analysis Software | nlx_154443 | SCR_009265 | Likelihood Ratio Test Allowing for Errors | 2026-08-29 11:30:57 | 1 | ||||||||
|
LOT Resource Report Resource Website |
LOT (RRID:SCR_009261) | LOT | software application, software resource | Software application (entry from Genetic Analysis Software) | gene, genetic, genomic, c++, ms-windows, linux, unix, solaris | is listed by: Genetic Analysis Software | nlx_154440 | http://peace.med.yale.edu/pub/LOT/ | SCR_009261 | Linkage analysis of Ordinal Traits | 2026-08-29 11:30:57 | 0 | |||||||
|
Centrillion Biosciences Inc. Resource Report Resource Website 1+ mentions |
Centrillion Biosciences Inc. (RRID:SCR_012358) | Centrillion | access service resource, core facility, service resource | Centrillion offers a portfolio of genomic services to academic, clinical and industrial researchers. Core provides experimental design consultation, data production services, and bioinformatics analyses for a wide variety of genomic applications. Core offers access to next-gen sequencing, genotyping and bioinformatics analysis. | genomic, consultation, consulting, data production, bioinformatics analyses, sequencing | is listed by: ScienceExchange | Available to external user | SciEx_12068 | http://www.centrilliontech.com/ | SCR_012358 | Centrillion Biosciences | 2026-08-29 11:32:27 | 6 | ||||||
|
Salk Institute Razavi Newman Integrative Genomics and Bioinformatics Core Facility (IGC) Resource Report Resource Website 10+ mentions |
Salk Institute Razavi Newman Integrative Genomics and Bioinformatics Core Facility (IGC) (RRID:SCR_014842) | SALK IGC, IGC | access service resource, core facility, service resource | Core facility established to assist the Salk community with integrating genomics data into their research. The primary focus of the core is to provide analysis support for next-generation sequencing applications. | core facility, gene, genomic, genomic data, analysis, consultation, applications | Helmsley Trust ; NCI CA014195; Salk Institute Razavi Newman Integrative Genomics and Bioinformatics Core Facility |
Open | SCR_014842 | , Integrative Genomics, Salk, Core Facility, Institute, Razavi Newman, UCSD, Bioinformatics | 2026-08-29 11:32:40 | 38 | ||||||||
|
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 | 2026-08-29 11:30:00 | 17 | ||||||
|
PrimerStudio Resource Report Resource Website 1+ mentions |
PrimerStudio (RRID:SCR_008232) | data or information resource, database | PrimerParadise is an online PCR primer database for genomics studies. The database contains predesigned PCR primers for amplification of exons, genes and SNPs of almost all sequenced genomes. Primers can be used for genome-wide projects (resequencing, mutation analysis, SNP detection etc). The primers for eukaryotic genomes have been tested with e-PCR to make sure that no alternative products will be generated. Also, all eukaryotic primers have been filtered to exclude primers that bind excessively throughout the genome. Genes are amplified as amplicons. Amplicons are defined as only one genes exons containing maximaly 3000 bp long dna segments. If gene is longer than 3000 bp then it is split into the segments at length 3000 bp. So for example gene at length 5000 bp is split into two segment and for both segments there were designed a separate primerpair. If genes exons length is over 3000 bp then it is split into amplicons as well. Every SNP has one primerpair. In addition of considering repetitive sequences and mono-dinucleotide repeats, we avoid designing primers to genome regions which contain other SNPs. -There are two ways to search for primers: you can use features IDs ( for SNP primers Reference ID, for gene/exon primers different IDs (Ensembl gene IDs, HUGO IDs for human genes, LocusLink IDs, RefSeq IDs, MIM IDs, NCBI gene names, SWISSPROT IDs for bacterial genes, VEGA gene IDs for human and mouse, Sanger S.pombe systematic gene names and common gene names, S.cerevisiae GeneBanks Locus, AccNo, GI IDs and common gene names) -you can use genome regions (chromosome coordinates, chromosome bands if exists) -Currently we provide 3 primers collections: proPCR for prokaryotic organisms genes primers -euPCR for eukaryotic organisms genes/exons primers -snpPCR for eukaryotic organisms SNP primers Sponsors: PrimerStudio is funded by the University of Tartu. | eukaryotic, exon, gene, amplicon, amplifcation, analysis, dinucleotide, dna, genome, genomic, molecular probe and primer databases, mononucleotide, mutation, organism, pcr, primer, prokaryotic, region, repetitive, segment, sequence, snp, snp detection | nif-0000-21334 | SCR_008232 | PrimerStudio | 2026-08-29 11:30:00 | 1 | ||||||||||
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Microbial Genomics Program Resource Report Resource Website 1+ mentions |
Microbial Genomics Program (RRID:SCR_008140) | data or information resource, database | Through its Microbial Genome Program (MGP) and its Genomics:GTL (GTL) program, DOEs Office of Biological and Environmental Research (BER) has sequenced more than 485 microbial genomes and 30 microbial communities having specialized biological capabilities. Identifying these genes will help investigators discern how gene activities in whole living systems are orchestrated to solve myriad life challenges. The MGP was begun in 1994 as a spinoff from the Human Genome Program. The goal of the program was to sequence the genomes of a number of nonpathogenic microbes that would be useful in solving DOE''s mission challenges in environmental-waste cleanup, energy production, carbon cycling, and biotechnology. Past projects include microbial genome program, microbial cell project, and the Laboratory Science Program at the DOE Joint Genome Institute. The two ongoing projects are Genomics: GTL program and Community Sequencing Program at the DOE Joint Genome Institute. Sponsors: Site sponsored by the U.S. Department of Energy Office of Science, Office of Biological and Environmental Research, THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | energy, environmental, gene, biological, biotechnology, carbon, community, cylcling, genome, genomic, living, microbes, microbial, nonpathogenic, system | has parent organization: United States Department of Energy | THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-20962 | SCR_008140 | MGP | 2026-08-29 11:30:18 | 2 | ||||||||
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AnoBase: An Anopheles database Resource Report Resource Website 1+ mentions |
AnoBase: An Anopheles database (RRID:SCR_008166) | data or information resource, database | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on November 22, 2023. A database containing genomic/biological information on anopheline mosquitoes, with an emphasis on Anopheles gambiae, the world''''s most important malaria vector. AnoBase is an integrated, relational database of basic biological and genetic data on anopheline species, with a particular emphasis on Anopheles gambiae. It has been designed as an information source and research support tool for the broad vector biology community. Although AnoBase is not a primary genomic database that develops and provides tools to access the genome of the malaria mosquito, it nevertheless contains several sections that offer data of genomic interest such as in situ hybridization images, an integrated gene tool and direct online access to AnoXcel, the proteomic database of An. gambiae. Moreover, AnoBase also contains information on non-gambiae mosquito species and a novel section on studies related to insecticide resistance. | gene, genetic, anopheles gambiae, anopheline, biological, biology, community, genomic, in-situ hybridization, insecticide, invertebrate databases, malaria, mosquito, proteomic, specie, vector, image |
is related to: VectorBase has parent organization: Foundation for Research and Technology-Hellas; Heraklion; Greece is parent organization of: Malaria Ontology |
NIAID | THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-21031 | http://www.anobase.org/ | SCR_008166 | AnoBase | 2026-08-29 11:30:19 | 2 |
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