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http://www.genomicus.biologie.ens.fr/genomicus-72.01/cgi-bin/search.pl

A genome browser that enables users to navigate in genomes in several dimensions: linearly along chromosome axes, transversaly across different species, and chronologicaly along evolutionary time.

Proper citation: Genomicus (RRID:SCR_011791) Copy   

•   Source: SciCrunch Registry

http://www.biocompare.com/Antibodies/

Search Tool that lets researchers search over 1 million antibodies from hundreds of antibody suppliers quickly and easily.

Proper citation: Biocompare Antibody Search Tool (RRID:SCR_011998) Copy   

•   Source: SciCrunch Registry

http://nhjy.hzau.edu.cn/kech/swxxx/jakj/dianzi/Bioinf6/GeneFinding/GeneFinding2.htm

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).

Proper citation: FGENESH (RRID:SCR_011928) Copy   

•   Source: SciCrunch Registry

http://race.unil.ch/

A collection of web tools designed to assist with the analysis of DNA microarray data and results. RACE performs probe level data preprocessing, quality checks, normalization, and visualization for Affymetrix GeneChips. In addition, it performs clustering and differential analysis of normalized expression levels or ratios for arbitrary platforms, and estimates the false discovery rates in lists of potentially regulated genes. A Gene Ontology (GO)-term analysis assists in the biological interpretation of gene lists. The user can customize each analysis request; upon submission the analysis is executed in a fully automated way., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025.

Proper citation: RACE (RRID:SCR_010950) Copy   

•   Source: SciCrunch Registry

http://proteins.gmu.edu/automute/

AUTOmated server for predicting functional consequences of amino acid MUTations in protEins.

Proper citation: AUTO-MUTE (RRID:SCR_013033) Copy   

•   Source: SciCrunch Registry

http://www.imtech.res.in/raghava/hslpred/

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.

Proper citation: HSLPred (RRID:SCR_011972) Copy   

•   Source: SciCrunch Registry

http://jci-bioinfo.cn/iLoc-Plant

Data analysis service for predicting subcellular localization of plant proteins with single and multiple sites.

Proper citation: iLoc-Plant (RRID:SCR_011973) Copy   

•   Source: SciCrunch Registry

http://bio-cluster.iis.sinica.edu.tw/kbloc/index.html

A knowledge-based data analysis service to predict the localization site(s) of both single-localized and multi-localized proteins.

Proper citation: KnowPredsite (RRID:SCR_011974) Copy   

•   Source: SciCrunch Registry

http://biome.ewha.ac.kr:8080/GSEAWebApp/

An integrative platform for diverse types of gene set analysis with annotation network navigation. It includes tools for statistical analysis, visualization of annotation relationships, retrieval of genes from annotation database, and set operation for gene sets. In an effort to allow access to a full spectrum of amassed biological knowledge, they have integrated a variety of annotation data that include the GO, domain, disease, drug, chromosomal location, and custom-defined annotations. Diverse types of molecular networks (pathways, transcription and microRNA regulations, protein-protein interaction) are also included. The pair-wise relationship between annotation gene sets was calculated using kappa statistics. GARNET consists of three modules--gene set manager, gene set analysis and gene set retrieval, which are tightly integrated to provide virtually automatic analysis for gene sets. A dedicated viewer for annotation network has been developed to facilitate exploration of the related annotations.

Proper citation: GARNET (RRID:SCR_012033) Copy   

•   Source: SciCrunch Registry

https://applications.bhsai.org/quartetsdb/

A large-scale orthology database for prokaryotes and eukaryotes inferred by evolutionary evidence. Contnet includes orthology predictions among 1621 complete genomes (1365 bacterial, 92 archaeal, and 164 eukaryotic), covering >7 million proteins and 4 million pairwise orthologs; Orthologous groups, comprising >300000 groups of orthologous proteins and >236000 corresponding gene trees; and inparalog groups, comprising >500000 groups of inparalogs.

Proper citation: QuartetS-DB (RRID:SCR_011981) Copy   

•   Source: SciCrunch Registry

http://gexp.kaist.ac.kr/figs/

A web-based workbench to conveniently compare the classification performances of many different filter-based gene selection procedures. In addition to the commonly used filter metric-classifier combinations, user can test various additive methodological options by specification of only up- or down-regulated genes to select, applying feature discretization and adding feature vectors to make a new feature. Throughout the comprehensive comparisons, user can identify the best performing gene selection procedure and subsequent classification performance measured by .632+ bootstrap error estimation for the given binary (two-class) microarray data., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025.

Proper citation: FiGS (RRID:SCR_012037) Copy   

•   Source: SciCrunch Registry

http://proteogenomics.musc.edu/ma/arrayQuest.php?page=home&act=manage

A web-accessible program for the analysis of DNA microarray data. ArrayQuest is designed to apply any type of DNA microarray analysis program executable on a Linux system (i.e., Bioconductor statistical and graphical methods written in R as well as BioPerl and C++ based scripts) to DNA microarray data stored in the MUSC DNA Microarray Database, the Gene Expression Omnibus (GEO) or in a password protected private database uploaded to the center point server. ArrayQuest analyses are performed on a computer cluster.

Proper citation: ArrayQuest (RRID:SCR_010935) Copy   

•   Source: SciCrunch Registry

http://gettinggeneticsdone.blogspot.fr/

Blog about getting Things Done in Genetics & Bioinformatics Research.

Proper citation: Getting Genetics Done (RRID:SCR_011989) Copy   

•   Source: SciCrunch Registry

http://koch.pathogenomics.ca/cgi-bin/pub/arraypipe.pl

A flexible tool for visualizing and analyzing your two-colour microarray slides.

Proper citation: ArrayPipe (RRID:SCR_010934) Copy   

•   Source: SciCrunch Registry

http://mail.nbfgr.res.in/fishmicrosat/

A microsatellite database of commercially important fishes and shellfishes of the Indian subcontinent.

Proper citation: FishMicrosat (RRID:SCR_013012) Copy   

•   Source: SciCrunch Registry

http://dm.postech.ac.kr/refmed/

Relevance Feedback Search Engine for PubMed. When a user enters a keyword in the search box, the PubMed search results will be returned. The user then specifies on a sample of results how much they are relevant to what she intends to find, for example, by specifying whether each article is high relevant, somewhat relevant, or not relevant. Once the user clicks Push Feedback button, the system learns a relevance function from the feedback and returns the top articles ranked highly according to the relevance function. The user can repeat the process until she gets satisfying results.

Proper citation: RefMED (RRID:SCR_011871) Copy   

•   Source: SciCrunch Registry

http://bioinformatics.charite.de/supercyp/

Database that contains about 1,170 drugs, 2,785 Cytochrome-Drug interactions and about 1,200 alleles.

Proper citation: SuperCYP (RRID:SCR_011957) Copy   

•   Source: SciCrunch Registry

http://bitsandbugs.org/

This blog reflects the workings of a group of scientists working at the intersection of public health microbiology and bioinformatics.

Proper citation: Bits and Bugs (RRID:SCR_012012) Copy   

•   Source: SciCrunch Registry

http://toolkit.tuebingen.mpg.de/clubsubp

Data analysis service for cluster-based Subcellular localization prediction.

Proper citation: ClubSub-P (RRID:SCR_011969) Copy   

•   Source: SciCrunch Registry

http://www.urogene.org/methprimer/

A public database holding PCR primers for popular DNA methylation analysis methods to prevent time-consuming primer design and experimental optimisation.

Proper citation: methPrimerDB (RRID:SCR_012017) Copy   

•   Source: SciCrunch Registry