Tag: dna polymorphism

dbSNP contains human single nucleotide variations, microsatellites, and small-scale insertions and deletions along with publication, population frequency, molecular consequence, and genomic and RefSeq mapping information for both common variations an ...

The Genome-Wide Association Studies (GWAS) Catalog provides a consistent, searchable, visualisable and freely available database of published SNP-trait associations, which can be easily integrated with other resources, and is accessed by scientists, ...

A bioinformatic database of antimicrobial resistance genes, their products and associated phenotypes.

Detects this family of direct repeats found in the DNA of many bacteria and archaea.

The Genome Database for Rosaceae (GDR) is a curated and integrated web-based relational database providing centralized access to Rosaceae genomics and genetics data and analysis tools to facilitate cross-species utilization of data.

The Animal Quantitative Trait Loci (QTL) Database (Animal QTLdb) strives to collect all publicly available trait mapping data, i.e. QTL (phenotype/expression, eQTL), candidate gene and association data (GWAS), and copy number variations (CNV) mapped ...

PolymiRTS (Polymorphism in microRNAs and their TargetSites) is a database of naturally occurring DNA variations in microRNA (miRNA) seed regions and miRNA target sites. MicroRNAs pair to the transcripts of protein-coding genes and cause translational ...

SNPedia is a wiki resource of the functional consequences of human genetic variation as published in peer-reviewed studies. Entries are formatted to allow associations to be assigned to single genotypes as well as sets of genotypes (genosets). Curati ...

GWAS Central stores genome-wide association study data. The database content comprises direct submissions received from GWAS authors and consortia in addition to actively gathered data sets from various public sources. GWAS data are discoverable from ...

Autism genetics KnowledgeBase, an evidence-based knowledgebase of autism genetics.

ALFRED is designed to make allele frequency data on human population samples readily available for use by the scientific and educational communities.

Polymorphic miRNA-mediated gene regulation in vertebrates

The Selective Targets database (SelTarbase ) is a curated database of public MNR mutation data in microsatellite unstable human tumors. A comprehensive database of all human coding, untranslated, non-coding RNA- and intronic MNRs (MNR_ensembl) is als ...

Coronary Artery Disease gene database

The DistiLD database aims to increase the usage of existing genome-wide association studies (GWAS) results by making it easy to query and visualize disease-associated SNPs and genes in their chromosomal context.

non-B DNA forming motifs in mammalian genomes

Association of human lncRNAs with disease-related SNPs

Bacterial whole genome sequence typing database

Satellog is a database that catalogs all pure 1-16 repeat unit satellite repeats in the human genome along with supplementary data. Satellog analyzes each pure repeat in UniGene clusters for evidence of repeat polymorphism.

Plant microRNA knowledge base

ProRepeat is an integrated curated repository and analysis platform for in-depth research on the biological characteristics of amino acid tandem repeats. ProRepeat collects repeats from all proteins included in the UniProt knowledgebase, together wit ...

Attempt to summarize all known sequence variations in the human genome, to facilitate research into how genotypes affect common diseases, drug responses, and other complex phenotypes.

Probe-Level Annotation Database for Affymetrix microarrays

A database of phosphorylation-related SNP (phosSNP) which are non-synonymous SNP (nsSNP) that affect the protein phosphorylation status. Using an in-house developed kinase-specific phosphorylation site predictor (GPS 2.0), we computationally detected ...

Cancer SNP data on copy number alterations

Mouse Indel Polymorphism Database

GWAS prioritization tool

Biomarkers: chemical, protein, chromosomal and genetic

Enhancers are a class of cis-regulatory elements that can increase gene transcription by forming loops in intergenic regions, introns and exons. Enhancers, as well as their associated target genes, and transcription factors (TFs) that bind to them, a ...

The Total Integrated Archive of short-Read and Array (TIARA) accumulates raw-level personal genomic data from whole genome next-generation sequencing (NGS) and comparative genomic hybridization (CGH) arrays. Initially, it contains 36 individual genom ...

Database of all currently available Symbiodinium sequences and associated host information of data collected from the Great Barrier Reef into a single relational database.

Visualize the natural connections between DNA sequences, natural variation (polymorphisms), molecular structures, protein-protein interactions, and gene expression patterns by combining several data visualization tools with a zoomable user interface.

A database to systematically evaluate the effects of SNPs on non-coding RNA expression across cancer types | Numerous studies indicate that ncRNAs have critical functions across biological processes, and single nucleotide polymorphisms (SNPs) could c ...

A database for disease/trait causal variants identified using summary statistics of genome-wide association studies. A GWAS fine-mapping pipeline used in CAUSALdb. CAUSALdb integrates large numbers of GWAS summary statistics and identifies credible ...

Deciphering the location, regulation and pathogenesis of internal mRNA N7-methylguanosine (m7G) sites in human. Search by RsID, Gene, Region or Disease:. Links MeT-DB Whistle DRUM DRRMSDB. A database for the disease-associated genetic variants tha ...

The Han Chinese Genomes Database (PGG.Han) serves as the central repository of the genomic data of the Han Chinese Genomes Project (Phase I). As is its current version, PGG.Han archives genomic data of 114,783 Han Chinese individuals (a.k.a. Han100 ...

Polymorphic Simple Sequence Repeats Database

Database of genetic variations associated with long noncoding genes.

A comprehensive database for SNPs and disease-related variations in miRNAs and miRNA targets. Welcome to the miRNASNP -v3 database. microRNAs (miRNAs) are endogenous and regulatory non-coding RNAs by targeting mRNAs for cleavage or translational re ...

An integrated omics knowledgebase for molecular breeding in rice. Rice Phenotype Search and Summary. Rice Genotype Search and Summary. Molecular Breeding Knowledge Database. Created with the Personal Edition of HelpNDoc: News and information abou ...

Human Assay-for-Transposase-Accessible Chromatin data

Massively parallel sequencing solutions for two common forensically used platforms | HIrisPlex-S Eye, Hair and Skin Colour DNA Phenotyping Webtool | 8px 9px 10px 11px 12px 13px 14px 15px 16px 17px 18px | With the advancement of DNA phenotyping as a t ...

Online open-access database for genome biology of ictalurid catfish (Ictalurus spp.). cBARBEL provides BLAST-based, fuzzy and specific search functions, visualization of catfish linkage, physical and integrated maps, a catfish EST contig viewer with ...

The duplicated gene nucleotide variants database (dbDNV) (http://goods.ibms.sinica.edu.tw/DNVs/) promotes accurate variation annotation. Aside from the flat file download, users can explore the gene-related duplications and the associated DNVs by DGL ...

Database to discover the regulate relationships in the context of enhancers.

3DSNP is a database for comprehensively annotating the regulatory function of human noncoding SNPs by exploring their 3D interactions with genes and genetically associated SNPs mediated by chromatin loops. 3DSNP integrates Hi-C data together with a v ...

A comprehensive database with multiple animal reference panels for genotype imputation.

A comprehensive, annotated database of microsatellites. Multiple Loci VNTR Analysis databases and software. Multi Locus VNTR Analysis (MLVA) databases and software. MICAS 3.0, Microsatellite Analysis Server is the online repository of All Bacteria ...

Construction of a core collection of eggplant (Solanum melongena L.) based on genome-wide SNP and SSR genotypes. a DNA marker database for vegetables

A database for decoding and annotating the 5-methylcytosine (m5C) epitranscriptome.

Database and software for mitochondrial imperfect interspersed repeats annotation.

circVAR database is genome-wide archive of genetic variants for human circular RNAs Circular RNAs (circRNAs), the 3' and 5' ends of which are covalently linked, are a kind of widely distributed and abundant RNAs found in eukaryotic organisms in recen ...

An extensive database for pan-species microsatellite investigation and marker development. A Django app for Pan-Species Microsatellite Database. Pan-Species Microsatellite Database. Microsatellites (simple repeat sequences, SSRs or short tandem re ...

A web application dedicated to genotyping members of Mycobacterium avium complex (MAC) including Mycobacterium avium subsp. paratuberculosis strains. Genotyping of Mycobacterium avium subsp. paratuberculosis (Map) is an indispensable tool for survei ...

Data integration platform for molecular and clinical epidemiological analysis of tuberculosis.

Novel disease-associated variants, common sequence variants, and results from newborn screening. The Pompe disease GAA variant database represents an effort to collect all known variants in the GAA gene and is maintained and provide by the Pompe cen ...

a manually curated database of lysosomal enzymes associated with rare diseases. RareLSD: Database for Human Lysosomal Enzymes. RareLSD: A Database for Human Lysosomal Enzymes. RareLSD is a manually curated database of 63 lysosomal enzymes present i ...

A centralized online platform for predicting the m6A methylation degree of mRNA and the SNP-related traits in Maize.

The database provides single-cell enhancer annotation in three species, including human (hg19), mouse (mm9), and fly (dm3).

Prediction of multiple drug resistant pulmonary tuberculosis against drug sensitive pulmonary tuberculosis by CT nodular consolidation sign. International partnership for clinical informatics. and advanced research in tuberculosis. Leveraging clin ...

PopTargs is a database for studying population evolutionary genetics of human microRNA target sites. These are the scripts used to create the MySQL database that is used by PopTargs.essex.ac.uk. The pipeline can be altered to create similar database ...

A comprehensive database for efficient retrieve and analysis of SNPs among 1210 maize lines. This R script chara-2-sparse.R is used to convert a traditional character genotype matrix into an integer sparse genotype matrix. This R script can be used ...

PSnpBind is a large database of protein–ligand complexes covering a wide range of binding pocket mutations and small molecules’ landscape. This database can be used as a source of data for different types of studies, for example, developing machine l ...

A graphical application for detecting known pathogenic short tandem repeats in sequencing data

Gateway to publicly accessible CRISPRs database.

A comprehensive bipolar disorder database for genetic research.

dbCNS is a database for conserved noncoding sequences.

A virus and host ncRNA-associated interaction repository with increased coverage and annotation.

A web-based database for high-resolution genome-wide identification of transposable elements in Cicer species.

GGVD is a goat genome variation database for tracking the dynamic evolutionary process of selective signatures and ancient introgressions.

The database of Allelic Dosage-corrected Allele-Specific human Transcription factor binding sites provides a genomic map of allele-specific binding at hundreds thousands single-nucleotide polymorphisms constructed by meta-analysis of thousands of ChI ...

CoxBase is an online platform for epidemiological surveillance, visualization, analysis and typing of Coxiella burnetii genomic sequence.

An integrated Web-database for bovine sequencing variations and selective signatures.

An atlas of 3'UTR alternative polyadenylation quantitative trait loci across human normal tissues.

Database for identifying, genotyping, and modelling the associations between single nucleotide polymorphisms (SNPs) in candidate genes and pathways that underlie inflammatory responses in humans.

COGVIC(Catalogue Of Germline Variants In Cancer). A comprehensive database of germline pathogenic variants in East Asian pan-cancer patients.

Multi-ethnic database for identifying copy number variations associated with cancer. View gene-centric CNV profile collected from healthy individuals and multiple cancer types.

United States Swine Pathogen Database is integrating veterinary diagnostic laboratory sequence data to monitor emerging pathogens of swine.

An atlas of intronic polyadenylation quantitative trait loci across human tissues.

CarrotOmics is an integrated web-based relational database, developed to house and integrate genomic, genetic and breeding data for carrot and related species. CarrotOmics includes genome assemblies, annotated transcripts, traits, maps, and markers b ...

Genome-wide analysis of polymorphisms identified domestication-associated polymorphism desert carrying important rice grain size/weight QTL | By using SNP-Seek, you abide by the data use license stated | Query for SNPs from the 3000 genome project | ...

In-silico functional characterization and drug-gene interactions of ACE2 gene network to understand its potential involvement in COVID-19 susceptibility.

A Database of Regulatory SNPs for Agricultural Animal Species.

CATA (The chromatin accessibility of cancer database) is a comprehensive Cancer ATAC-seq database that aim to provided a large number of available resources on cancer ATAC-seq datas. The database was annotated with potential functions of ATAC-Peak in ...

Japanese genome-wide identification of microRNA expression quantitative trait loci across dementia types.

Gene-centric map of the genome structure, coding sequences, and identified allelic variation in genes being targeted for a role in disease susceptibility by the NIEHS (National Institute of Evironmental Health Sciences). This database provides a grap ...

ChIP-Atlas is a web service providing both GUI- and API-based data-mining tools to reveal the architecture of the transcription regulatory landscape.

A high-quality SNV database for interspecies genetic divergence investigation among macaques. A database for genetic divergence investigation among macaques. MACSNVdb is an open-access SNV database comprising ~74.51 million high-quality non-redunda ...

Staphopia is a database focusing on the genomes of the bacterial pathogen Staphylococcus aureus. Life-threatening Methicillin-resistant S. aureus (MRSA) infections strike across our society, both in the community and hospital settings. In recent year ...

A database storing SNPs and their predicted impact on transcription factor (TF) binding in promoter regions for different crops.

BE-FF (Base Editors Functional Finder) is a pythonic tool that identifies suitable base editors to repair a given single nucleotide variation (SNV). The web tool does not require any registration, installation or additional plugins. By inserting the ...

An open dataset of Plasmodium falciparum genome variation in 7,000 worldwide samples. Plasmodium falciparum Community Project. Dried blood spot collection. Photo credit: Will Hamilton. HiSeq machines at the Wellcome Trust Sanger Institute. Photo c ...

a web server for allele-specific sgRNA design in precision medicine | Abstract Allele-specific targeting by CRISPR provides a point of entry for personalized gene therapy of dominantly inherited diseases, by selectively disrupting the mutant alleles ...

A collective database of helmeted guinea fowl genomics. Helmeted guinea fowl (HGF; Numida meleagris) is vigorous, hardy, and mostly disease-free game birds. The rearing of HGF is a potential alternative poultry system. Because of the characteristics ...

Enrichment analyses of diseases and pathways associated with precocious puberty using PrecocityDB. PrecocityDB Database and enrichment analysis of genes associated with precocious puberty The SQL file of database is stored as ZIP file precocity.zip ...