Tag: transcriptomics


Found 84 sources
Source Match ReputationScore*

FAIRDOMHub


The FAIRDOMHub is a publicly available resource build using the SEEK software, which enables collaborations within the scientific community. FAIRDOM will establish a support and service network for European Systems Biology. It will serve projects in ...
100%

Immunology Database and Analysis Portal


The Immunology Database and Analysis Portal (ImmPort) data repository was created for the exploration of clinical and basic research data on immunology and associated findings. ImmPort intends to promote effective data sharing across the basic, clini ...
92%

ExPASy Bioinformatics Resource Portal


Swiss Institute of Bioinformatics (SIB) coordinates research and education in bioinformatics throughout Switzerland and provides bioinformatics services to the national and international research community. ExPASy gives access to numerous repositorie ...
88%

ProteomicsDB


ProteomicsDB is a protein-centric in-memory database for the exploration of large collections of quantitative mass spectrometry-based proteomics data. ProteomicsDB was first released in 2014 to enable the interactive exploration of the first draft of ...
84%

Small Molecule Pathway Database


The Small Molecule Pathway Database (SMPDB) contains small molecule pathways found in humans, which are presented visually. All SMPDB pathways include information on the relevant organs, subcellular compartments, protein cofactors, protein locations, ...
82%

H-Invitational Database


H-Invitational Database (H-InvDB) is an integrated database of human genes and transcripts. By extensive analyses of all human transcripts, we provide curated annotations of human genes and transcripts that include gene structures, alternative splici ...
74%

Omics Discovery Index


The Omics Discovery Index (OmicsDI) provides dataset discovery across a heterogeneous, distributed group of Transcriptomics, Genomics, Proteomics and Metabolomics data resources, including both open and controlled access data resources. The resource ...
68%

Library of Integrated Network-Based Cellular Signatures Data Portal


The LINCS Data Portal provides a unified interface for searching LINCS dataset packages and reagents. LINCS data are being made openly available as a community resource through a series of data releases, so as to enable scientists to address a broad ...
68%

NCBI BioProject


A BioProject is a collection of biological data related to a single initiative, originating from a single organization or from a consortium. A BioProject record provides users a single place to find links to the diverse data types generated for that ...
65%

Bgee DataBase for Gene Expression Evolution


Bgee is a database to retrieve and compare gene expression patterns in multiple animal species, produced from multiple data types (RNA-Seq, Affymetrix, in situ hybridization, and EST data). Bgee is based exclusively on curated "normal", healthy, expr ...
65%

Ascidian Network for In Situ Expression and Embryological Data


Aniseed is a database designed to offer a representation of ascidian embryonic development at the level of the genome (cis-regulatory sequences, spatial gene expression, protein annotation), of the cell (cell shapes, fate, lineage) or of the whole em ...
64%

CleanEx


CleanEx is a database which provides access to public gene expression data via unique approved gene symbols and which represents heterogeneous expression data produced by different technologies in a way that facilitates joint analysis and cross-datas ...
63%

Banana Genome Hub


The Banana Genome Hub centralises databases of genetic and genomic data for the Musa acuminata crop, and is the official portal for the Musa genome resources.
63%

Mouse Proteome Project


Global survey of organ and organelle protein expression in mouse: combined proteomic and transcriptomic profiling. This molecular compendium, fully accessible via a searchable web-browser interface, serves as a reliable reference of the expressed tis ...
63%

Newt-omics


A comprehensive repository for omics data from the red spotted newt Notophthalmus viridescens from high throughput experiments. Newt-Omics aims to provide a comprehensive platform of expressed genes during tissue regeneration, including extensive ann ...
62%

ProPortal


ProPortal is a database containing genomic, metagenomic, transcriptomic and field data for the marine cyanobacterium Prochlorococcus. They provide a source of cross-referenced data across multiple scales of biological organization—from the genome to ...
62%

LegumeIP


The LegumeIP 2.0 database hosts large-scale genomics and transcriptomics data and provides integrative bioinformatics tools for the study of gene function and evolution in legumes.
60%

deepBase


Deep sequencing data from 185 small RNA libraries from diverse tissues and cell lines of seven organisms: human, mouse, chicken, C. intestinalis, D. melanogaster, C. elegans and A. thaliana. It facilitates the comprehensive annotation and discovery o ...
60%

FaceBase


FaceBase is a collaborative NIDCR-funded consortium to generate data in support of advancing research into craniofacial development and malformation. It serves as a community resource by generating large datasets of a variety of types and making them ...
59%

PolyASite


Alternative cleavage and polyadenylation (APA) of RNAs gives rise to isoforms with different terminal exons, which in turn determine the fate of the RNA and the encoded protein. APA has thus been implicated in the regulation of cell proliferation, di ...
56%

CellPhoneDB


CellPhoneDB is a publicly available repository of curated receptors, ligands and their interactions. Subunit architecture is included for both ligands and receptors, representing heteromeric complexes accurately. This is crucial, as cell-cell communi ...
56%

A database for spatially resolved transcriptomes


Spatially resolved transcriptomics providing gene expression profiles with positional information is key to tissue function and fundamental to disease pathology. SpatialDB is the first public database that specifically curates spatially resolved tran ...
56%

ONCO.IO


An integrated knowledge database and network analysis tool for exploring complex gene regulatory networks involved in cancer. The database content is based on the manually curated annotation of experimentally verified molecular interactions described ...
54%

circAtlas


circAtlas is an integrated resource of one million highly accurate circular RNAs from 1070 vertebrate transcriptomes. Existing circular RNA (circRNA) databases have become essential for transcriptomics. However, most are unsuitable for mining in-dept ...
50%

Datanator


Datanator is an integrated database of genomic and biochemical data designed to help investigators find data about specific molecules and reactions in specific organisms and specific environments for meta-analyses and mechanistic models. Datanator cu ...
50%

AlgaePath


Comprehensive analysis of metabolic pathways using transcript abundance data from next-generation sequencing in green algae.
50%

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 ...
49%

oRNAment


A database of putative RNA binding protein target sites in the transcriptomes of model species. Dashboard - Overview of the database. Welcome to oRNAment - o RNA motifs enrichment in complete transcriptomes. Here, we developed a computational tool ...
48%

SilkDB 3.0


SilkDB is an open-accessibility database and powerful platform that provides comprehensive information on the silkworm (Bombyx mori) genome. Since SilkDB 2.0 was released 10 years ago, vast quantities of data about multiple aspects of the silkworm ha ...
48%

Full-parasites


Full-Parasites is a transcriptome database of apicomplexa parasites, which include Plasmodium and Toxoplasma species. It contains EST sequences, full length cDNAs, transcription start sites and RNA-seq data sets. Various types of cDNA data resources ...
48%

MeDAS


Alternative splicing during development in 20 species
47%

CSEA-DB


Cell type specificity of genetic traits
47%

AtMAD


Arabidopsis thaliana Multi-omics Association Database
47%

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 ...
47%

Fly Terminalia Database


A database of gene expression patterns in the Drosophila terminalia. An Atlas of Transcription Factors Expressed in Male Pupal Terminalia of Drosophila melanogaster.
46%

LncSpA


LncRNA Spatial Atlas of Expression across Normal and Cancer Tissues. Knowledge of lncRNA spatial expression patterns across tissues is important for identifying their roles in different tissues that provide important insights into disease mechanisms ...
46%

Muscle Gene Sets


Versatile methodological aid to functional genomics in the neuromuscular field.
45%

SyntDB


SyntDB: defining orthologues of human long noncoding RNAs across primates. SyntDB - the database of human long non-coding RNAs conserved across primates. Comprehensive collection of long noncoding RNAs (lncRNAs) and their evolutionary relationships ...
45%

CellTalkDB


CellTalkDB is a manually curated database of ligand-receptor interactions in humans and mice. CellTalkDB contains literature-supported ligand-receptor (LR) pairs for human and mouse, which are curated from protein-protein interactions (PPIs) in STRIN ...
45%

alkaligrass


A high-quality genome sequence of alkaligrass provides insights into halophyte stress tolerance. A high-quality chromosome-level genome sequence of alkaligrass assembled from Illumina, PacBio and 10× Genomics reads combined with genome-wide chromosom ...
45%

TupaiaBase


Construction of complete Tupaia belangeri transcriptome database by whole-genome and comprehensive RNA sequencing | Tupaia belangeri (Family Tupaia, Genus Tupaia) | Tupaia ( Tupaia belangeri ) is a small mammal belonging to the family Tupaiidae, whic ...
45%

abalonedb


The Abalomics community portal is a community driven project to increase genetic knowledge of the abalone species.
44%

CoralTBase


Transcriptomic database for 14 species of scleractinian corals.
44%

LeGOO


An Expertized Knowledge Database for the Model Legume Medicago truncatula. Medicago truncatula was proposed, about three decades ago, as a model legume to study the Rhizobium-legume symbiosis. It has now been adopted to study a wide range of biologi ...
44%

BacHBerryEXP


A gene Expression Browser for RNA-seq, de novo transcriptome assembly and flavonoid gene analysis in 13 wild and cultivated berry fruit species with high content of phenolics.
44%

CrustyBase


CrustyBase is an interactive online database for crustacean transcriptomes. CrustyBase provides an environment for navigating and visualising crustacean transcriptome datasets. Users can search existing transcriptomes or import new datasets of their ...
44%

Coriander Genomics Database


The CGDB (Coriander Genome Database) is mainly contained the coriander genome, transcriptome, and metabolome datasets
44%

crisprSQL


CRISPR/Cas9 Off-Target Cleavage Assays
43%

GabiPD


The GABI Primary Database, GabiPD (http://www.gabipd.org/), was established in the frame of the German initiative for Genome Analysis of the Plant Biological System (GABI). The goal of GabiPD is to collect, integrate, analyze and visualize primary in ...
43%

OmicsDB


OmicsDB is a database for the storage and management of omics data and auxiliary information. The database contains cross-species, cross-technique and cross-types. It offers user-submission tools of which aim to reduce the work revolving adherence to ...
43%

Primate Cell Type Database


PrimateDatabase.com, a publicly available web-accessible archive of intracellular patch clamp recordings and highly detailed three-dimensional digital reconstructions of neuronal morphology. PrimateDatabase.com is unique because it is currently the l ...
43%

UTRdb/UTRsite


The 5' and 3' untranslated regions of eukaryotic mRNAs may play a crucial role in the regulation of gene expression controlling mRNA localization, stability and translational efficiency. For this reason we developed UTRdb, a specialized database of 5 ...
43%

GEISHA


GEISHA (Gallus Expression In Situ Hybridization Analysis) is a centralized and comprehensive repository of precise spatial and temporal information on chicken embryonic gene expression created through in situ hybridization. Annotations include probe ...
43%

RecountDB


A secondary database derived from primary data in NCBI's short read archive. Database for corrected read counts and genome mapping on NCBI's transcriptomics archives.
41%

ADEx: Autoimmune Diseases Explorer


A comprehensive and centralized database for exploring omics data in Autoimmune Diseases. The database that integrates 82 curated transcriptomics and methylation studies covering 5609 samples for some of the most common autoimmune diseases.
41%

PICEAdatabase


PICEAdatabase is a web database for Picea omics and phenotypic information.
41%

South Green Genome Hubs


The South Green Genome Hub is a suite of crop-specific community portals to manage genomic datasets with focus on tropical and Mediterranean plants. Currently developed on Banana, Cassava, Cacao, Coffee, Grass, Rice and Sugarcane, genome hubs provide ...
41%

Angeldust


Database of Streptocarpus rexii transcriptome.
41%

RNAeditingAtlas


An Atlas of RNA editing events in human tissues.
41%

SGID


a comprehensive and interactive database of the silkworm | Silkworm Genome Informatics Database | e.g. FIBH or KWMTBOMO15365 or BGIBMGA005111 or silk fibroin heavy chain &nbspBrowse in Gene Lists | Search by sequence alignment against genomes or gene ...
41%

UTRSite


A collection of functional sequence patterns located in UTR sequences.
41%

TRANSNAP


TRANSNAP is a web database providing comprehensive information on Japanese pear transcriptome.
41%

ElMMo


A website to browse miRNA target predictions from the ElMMo algorithm
41%

ILDGDB


A manually curated database of genomics, transcriptomics, proteomics and drug information for interstitial lung diseases. ILDGDB is a manually curated database that provides comprehensive experimentally supported associations between genes and inter ...
41%

CDRgator


Web-based database, CDRgator (Cancer Drug Resistance navigator) for comparative analysis of gene expression signatures of cancer drug resistance.
41%

RNA Abundance Database


=== !!!!! Due to changes in technology and funding, the RAD website is no longer available !!!!! ===
41%

CoFly


CoFly is a gene coexpression database for the fruit fly Drosophila melanogaster
41%

SCMVTDb


Plant virus interaction mechanism and associated pathways in mosaic disease of small cardamom (Elettaria cardamomum Maton) by RNA-Seq approach.
41%

smirnaDB


smiRNAdb is a database containing expression information for human, mouse, rat, zebrafish, worm and fruitfly small RNAs (mostly miRNAs).
41%

ExoBCD


ExoBCD is a comprehensive database for exosomal biomarker discovery in breast cancer.
41%

PlantCARE


Database of plant cis-acting regulatory elements and a portal to tools for in silico analysis of promoter sequences.
41%

antgenomes.org


Community database centralizing genomic and transcriptomic sequence information for ants and related species (e.g., bees and wasps). Provides BLAST search and data download. Updated periodically with latest data and new tools.
41%

RNA editing database (REDIdb)


RNA editing database in organelles.
41%

AlnC


AlnC is an extensive database of long non-coding RNAs in Angiosperms.
41%

NexGenEx-Tom


Gene Expression platform to investigate gene expression and functionalities in the tomato genome. It includes expression data from cultivated specie/variety Heinz 1706, Ailsa Craig e Solanum pimpinellifolium.
41%

CuAS


CuAS is an integrated database for Cucumber Alternative Splicing, includes genomic annotation, isoform-level functions, isoform-level features and tissue-specific AS events among multiple tissues.
41%

Cocoa Genome Hub


The Cocoa Genome Hub is an integrated web-based database providing centralized access to the cocoa reference genome sequences and genomic resources.
41%

long-read-tools


Long-read-tools is an interactive database of software tools for the analysis of long read sequencing data.
41%

OMICtools


A community-based search platform. OMICtools bridges the gap between researchers and tool developers. OMICtools brings together an interactive worldwide user community, linking expert curators who submit, review and categorize tools, to users who str ...
41%

BPDRTDb


Black Pepper Drought Transcriptome Database (BPDRTDb) catalogues all the genomic information like differential expressed genes, microsatellites, variants, transcriptional factors, pathways, domain and families of assembled transcriptome associated wi ...
41%

PulmonDB


a curated lung disease gene expression database | An accessible R package to download PulmonDB data | PulmonDB is a transcriptomic database of IPF and COPD with curated annotation | PulmonDB is a gene expression database with Chronic Obstructive Pulm ...
41%

REPIC


A database for exploring N6-methyladenosine methylome. REPIC (RNA Epitranscriptome Collection) is a database dedicated to provide a new resource to investigate potential functions and mechanisms of N6-adenosine methylation (m6A) modifications. Curre ...
41%

METdb


METdb is a genomic reference database dedicated to micro-eukaryotic marine species transcriptomes. Most datasets were from Marine Microbial Eukaryote Transcriptome Sequencing Project and others from Roscoff marine station and Tara research projects. ...
41%

HpeNet


Co-expression Network Database for <i>de novo</i> Transcriptome Assembly of <i>Paeonia lactiflora</i> Pall. Paeonia lactiflora Pall., commonly known as the herbaceous peony, is an ornamental flowering plant known around the world. Its oil contains a ...
41%

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