Tag: microarray experiment


Found 83 sources
Source Match ReputationScore*

Gene Expression Omnibus


The Gene Expression Omnibus (GEO) is a public repository that archives and freely distributes microarray, next-generation sequencing, and other forms of high-throughput functional genomic data submitted by the scientific community. In addition to dat ...
100%

miRBase


The miRBase database is a searchable database of published miRNA sequences and annotation. Each entry in miRBase represents a predicted hairpin portion of a miRNA transcript (termed mir in the database), with information on the location and sequence ...
85%

The European Genome-phenome Archive


The European Genome-phenome Archive (EGA) allows you to explore datasets from genomic studies, provided by a range of data providers. Access to datasets must be approved by the specified Data Access Committee (DAC).
70%

TarBase


DIANA-TarBase is a reference database that indexes experimentally-supported microRNA (miRNA) targets. It integrates information on cell-type specific miRNA–gene regulation and includes miRNA-binding locations. The target data provided by DIANA-TarBas ...
54%

BRENDA tissue / enzyme source


A structured controlled vocabulary for the source of an enzyme. It comprises terms for tissues, cell lines, cell types and cell cultures from uni- and multicellular organisms.
50%

FlyAtlas 2


FlyAtlas 2 is the RNA-Seq successor to the original FlyAtlas (which was based on microarray analysis). Specifically, FlyAtlas 2 now provides access to: transcript information, sex-specific data for adult somatic tissues, and micro-RNA genes. FlyAtlas ...
49%

Arabidopsis eFP Browser


An ""Electronic Fluorescent Pictograph"" browser for exploring and analyzing large-scale biological data sets (using example of Arabidopsis). Explores microarray and other data for hypothesis generation. eFP Browser engine paints data from large-scal ...
48%

miRTarBase


As a database, miRTarBase has accumulated more than fifty thousand miRNA-target interactions (MTIs), which are collected by manually surveying pertinent literature after data mining of the text systematically to filter research articles related to fu ...
47%

DNA Data Bank of Japan


An annotated collection of all publicly available nucleotide and protein sequences. DDBJ collects sequence data mainly from Japanese researchers, as well as researchers in other countries. DDBJ is part of the International Nucleotide Sequence Databas ...
46%

Universal PBM Resource for Oligonucleotide Binding Evaluation


The UniPROBE (Universal PBM Resource for Oligonucleotide Binding Evaluation) database hosts data generated by universal protein binding microarray (PBM) technology on the in vitro DNA binding specificities of proteins.
46%

GeneWeaver


The GeneWeaver data and analytics website is a publically available resource for storing, curating and analyzing sets of genes from heterogeneous data sources. The system enables discovery of relationships among genes, variants, traits, drugs, enviro ...
45%

Princeton University MicroArray database


The Princeton University MicroArray database (PUMAdb) stores raw and normalized data from microarray experiments, as well as their corresponding image files. In addition, PUMAdb provides interfaces for data retrieval, analysis and visualization.
44%

miRDB


miRNA target prediction and functional annotation
44%

Arabidopsis Thaliana Trans-factor and cis-Element prediction Database


ATTED-II is a coexpression database for plant species with parallel views of multiple coexpression data sets and network analysis tools. The user can find functional gene relationships and design experiments to identify gene functions by reverse gene ...
43%

AmoebaDB


AmoebaDB belongs to the EuPathDB family of databases and is an integrated genomic and functional genomic database for Entamoeba and Acanthamoeba parasites. In its first released, AmoebaDB contained the genomes of three Entamoeba species. AmoebaDB int ...
42%

PrognoScan


Database for meta-analysis of the prognostic value of genes. It has features of 1) a large collection of publicly available cancer microarray datasets with clinical annotation, as well as 2) a tool for assessing the biological relationship between ge ...
41%

MethylomeDB


This resource details DNA methylation profiles in human and mouse brain. This database includes genome-wide DNA methylation profiles for human and mouse brains. The DNA methylation profiles were generated by Methylation Mapping Analysis by Paired-end ...
40%

miRNEST


miRNEST is an integrative collection of animal, plant and virus microRNA data. miRNEST is being gradually developed to create an integrative resource of miRNA-associated data. The data comes from our computational predictions (new miRNAs, targets, mi ...
40%

SOURCE


The explosion in the number of functional genomic datasets generated with tools such as DNA microarrays has created a critical need for resources that facilitate the interpretation of large-scale biological data. SOURCE is a web-based database that b ...
39%

Minimum Information Required for A Glycomics Experiment - Glycan Microarray Analysis


MIRAGE (Minimum Information Required for A Glycomics Experiment was created to improve the quality of glycomics data in the scientific literature. These guidelines were drafted to be intentionally minimal and apply only to information required for ge ...
38%

Affymetrix NetAffx Analysis Center


Allows correlation of GeneChip array results with array design and annotation information; provides access to array content information, including probe sequences and gene annotations; free registration is required.
38%

Gene Expression Barcode


Gene expression data sorted into two groups: expressed and not expressed genes
37%

DNA Methylation Interactive Visualization Database


DNMIVD is a comprehensive annotation and interactive visualization database for DNA methylation profile of diverse human cancer constructed with high throughput microarray data from TCGA and GEO databases, and it also integrates some data from Pancan ...
36%

Plant MicroRNA Database (PMRD)


The database integrates available plant miRNA data deposited in public databases, gleaned from the recent literature, and data generated in-house. This database contains sequence information, secondary structure, target genes, expression profiles and ...
36%

SilkDB


The SilkDB is an open-access database for genome biology of the silkworm (Bombyx mori). SilkDB contains the genomic data, including genome assembly, gene annotation, chromosomal mapping, orthologous relationship and experiment data, such as microarra ...
36%

MERAV


Metabolic gEne RApid Visualizer
36%

Genomic Expression Archive


Genomic Expression Archive (GEA) is a public database of functional genomics data such as gene expression, epigenetics and genotyping SNP array. Both microarray- and sequence-based data are accepted in the MAGE-TAB format in compliance with MIAME and ...
36%

CIBEX


Public repository for gene expression experimental data. The database system is compliant with the MIAME standard.
35%

Multi Experiment Matrix (MEM)


MEM (Multi-Experiment Matrix) provides gene expression similarity searches, visualisation and analyses across many datasets from ArrayExpress and GEO. MEM uses rank aggregation to merge information from different datasets into a single global orderin ...
35%

Tissue Microarray Ontology


Tissue microarrays (TMA) are enormously useful tools for translational research, but incompatibilities in database systems between various researchers and institutions prevent the efficient sharing of data that could help realize their full potential ...
34%

Longhorn Array Database


The Longhorn Array Database (LAD) is a MIAME‐compliant microarray database that operates on PostgreSQL and Linux. It is a free, completely open‐source, and provides a systematic and proven environment in which vast experiment sets can be safely archi ...
33%

PLANdbAffy


Probe-Level Annotation Database for Affymetrix microarrays
32%

KnockTF


Transcription factors (TFs) and their target genes have important functions in human diseases and biological processes. Gene expression profile analysis before and after knockdown or knockout is one of the most important strategies for obtaining targ ...
32%

mESAdb


microRNA Expression and Sequence Analysis Database
32%

Ashbya Genome Database


The Ashbya Genome Database (AGD) is a genome/transcriptome database containing gene annotation and high-density oligonucleotide microarray expression data for protein-coding genes from Ashbya gossypii and the model organism Saccharomyces cerevisiae.
32%

EndoDB


a database of endothelial cell transcriptomics data. EndoDB The endothelial cell database (EndoDB) is a freely accessible added-value database that facilitates bench scientists to unlock the untapped potential of publicly available (single cell) tra ...
31%

EXPath


EXPath is a database resource that collects and utilizes expression profiles derived from microarray under various conditions to infer metabolic pathways for six model plants: Arabidopsis thaliana, Oryza sativa, Zea mays, Solanum lycopersicum, Glycin ...
31%

iModulonDB


"iModulons", groups of independently-modulated genes
31%

OmicsDB


OmicsDB offers an integrated platform for studying biological networks in multiple organisms, as well as accessing gene expression data. By expanding the classic single species databases across species, it is possible to leverage the amount of inform ...
30%

PEATmoss


A unified gene expression atlas for the model plant Physcomitrella patens. PEATmoss is an interactive tool to visualize gene expression data. These help pages explain several ways to query the expression data and to visualize the results, enabling t ...
30%

bc-GenExMiner


Breast cancer gene-expression miner (bc-GenExMiner) 4.5 is a mining module computes breast cancer differential gene expression analyses. It is a statistical mining tool of published annotated breast cancer transcriptomic data (DNA microarrays and RNA ...
30%

FORK-seq


FORK-seq is a replication landscape of the Saccharomyces cerevisiae genome by nanopore sequencing
30%

BuG@Sbase


BuG@Sbase is a microbial gene expression and comparative genomic database containing microarray datasets.
30%

ReGEO


Restructured version of Gene Expression Omnibus (GEO) that provides a user friendly interface for curating GEO database
29%

ACID


The Array Clone Information Database (ACID) is a searchable resource for information about human, mouse, and rat cDNA clones. Each clone contains information about the assigned UniGene cluster(s), location in the full-length transcript, assigned gene ...
29%

CytoSig


Systematic investigation of cytokine signaling activity at the tissue and single-cell levels.
29%

MitoGenesisDB


Expression data to explore spatio-temporal dynamics of mitochondrial biogenesis
29%

Animal-ImputeDB


A comprehensive database with multiple animal reference panels for genotype imputation.
29%

PhylOPDb


Phylogenetic Oligonucleotide Probe Database. Provides a convivial and easy-to-use web interface to browse both regular and explorative 16S rRNA-targeted probes.
29%

GlyMDB


Glycan Microarray Database and Analysis Toolset.
29%

SoyFN


Knowledge database of Soybean Functional gene Networks and miRNA functional networks.
29%

SigReannot-mart


Re-annotating oligo sets used for expression microarrays is essential to supply biologists with up-to-date annotations. The tool is a query environment populated with regularly updated annotations for different oligo sets. It permits easy extraction ...
29%

NimbleGen Gene Description


The NimbleGen Gene Description is a text tabular format that contains descriptive information (annotation) about the genes on an array. Please note that Roche issued a statement in 2012 as follows: "As previously announced in June 2012, Roche has exi ...
28%

CNAdbCC


CNAdbCC is a curated database for copy number aberrations analysis and visualization of cervical cancer. Currently, the database contains about 1,000 dataset samples mainly integrated by affymetrix and aligent platform. Affymetrix is based on light-c ...
28%

DREAM


A database of experimentally supported protein-coding RNAs and drug associations in human cancer.
28%

TRANSNAP


TRANSNAP is a web database providing comprehensive information on Japanese pear transcriptome.
28%

Hepamine


A Liver Disease Microarray Database, Visualization Platform and Data-Mining Resource. Providing Bioinformatics Data For The Study Of Liver Diseases. a liver disease microarray database, visualization platform and data-mining resource. Hepamine was ...
28%

TCGA-LGG


Engrailed 1 overexpression as a potential prognostic marker in Lower Grade Glioma.
27%

CoFly


CoFly is a gene coexpression database for the fruit fly Drosophila melanogaster
27%

MuscleAtlasExplorer


A web service for studying gene expression in human skeletal muscle. MuscleAtlasExplorer(BETA)2.
27%

COVID-ONE-hi


The One-stop Database for COVID-19 Specific Humoral Immunity and Clinical Parameters.
27%

MetaTropismDB


A database of organ-specific metastasis induced by human cancer cell lines in mouse models. The organotropism is the propensity of metastatic cancer cells to colonize preferably certain distant organs, resulting in a non-random distribution of metas ...
27%

ncRI


A manually curated database for experimentally validated non-coding RNAs in inflammation. Non-coding RNAs in Inflammation (ncRI) provides a manually curated database for experimentally validated non-coding RNAs in inflammatary disease. Recently, inf ...
27%

Haloarchaeal Genomes


Haloarchaeal genomes database.
25%

AOE


AOE (All Of gene Expression) - an integrated index for public gene expression databases.
25%

Cell Taxonomy


A curated repository of cell types with multifaceted characterization.
25%

PCxN


Powerful new framework for interrogation of global pathway relationships.
25%

GEPSdb


The Gene Expression Database of Poplar under Stress.
25%

PltDB


A blood platelets-based gene expression database for disease investigation.
25%

CGGA


The Chinese Glioma Genome Atlas (CGGA) is a user-friendly web application for data storage and analysis to explore brain tumors datasets. This database includes the whole-exome sequencing, DNA methylation, mRNA sequencing, mRNA microarray and microRN ...
25%

EpiMOLAS


EpiMOLAS (Epi-genoMics OnLine Analysis System) is an intuitive web-based framework for genome-wide DNA methylation analysis.
25%

dbDEMC 3.0


dbDEMC (database of Differentially Expressed MiRNAs in human Cancers) is an integrated database that designed to store and display differentially expressed microRNAs cancers detected by high-throughput and low-throughput methods.
25%

CancerCoCoPUTs


Distinct signatures of codon and codon pair usage in 32 primary tumor types in the novel database CancerCoCoPUTs for cancer-specific codon usage.
25%

HAHmiR DB


A Server Platform For High Altitude Human miRNA-Gene Coregulatory Networks And Associated Regulatory-Circuits. HAHmiR DB (High-Altitude Human miRNA Database) is a unique, comprehensive, curated collection of miRNAs that have been experimentally vali ...
25%

BrainEXP-NPD


Database of transcriptomic profiles of human brains of six neuropsychiatric disorders.
25%

BDdb


BDdb is a comprehensive database associated with birth-defect-related diseases. It consists of multi-omics datasets involving tens of common birth-defect diseases, and BDdb supplements more than 2000 biomarkers belonging to 22 types of birth defects.
25%

CancerMIRNome


CancerMIRNome is a web server for cancer miRNome interactive analysis and visualization based on the huamn miRNome data of 33 cancer types from The Cancer Genome Atlas (TCGA), and 40 public cancer circulating miRNome profiling datasets from NCBI Gene ...
25%

COVID-ONE-humoral immune


The One-stop Database for COVID-19-specific Antibody Responses and Clinical Parameters.
25%

CNV-ETLAI


A scalable artificial intelligence platform that automatically finds copy number variations (CNVs) in journal articles and transforms them into a database.
25%

DepMap


Extracting Biological Insights from the Project Achilles Genome-Scale CRISPR Screens in Cancer Cell Lines | The Cancer Dependency Map Project at Broad Institute | A resource of data and computational tools to expose the vulnerabilities of cancer, and ...
25%

SNPs


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 | ...
25%

MalariaGEN


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 ...
25%

iMarmot


An integrative platform for comparative and functional genomics of marmots. iMarmot: an integrative Marmot database. Marmots are large Holarctic rodents in the genus Marmota with 14 living species. Most marmot species occupy a harsh environment cha ...
25%

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