Cell line expression database 0+ expression array data, point mutation profiles using a SNP genotyping platform called OncoMap 3. 📘. The clustering of 19466 genes expressed in cell lines resulted in 69 expression clusters, which have been manually annotated to describe common features in terms of function and specificity. Expression Atlas update: gene and protein expression in multiple species After expansion of each cell line, DNA and RNA was extracted and used to generate Affymetrix SNP 6. e. org Expression Atlas update: insights from sequencing data at both bulk and single cell level Nucleic Acids Research , 01 January 2024. shtml) is an extensive and well-curated community resource of mouse developmental gene The RNA data was used to cluster genes according to their expression across cell lines. In addition to the defined featured genes , you can also explore a group of genes of interest with customized filters. (2012) The Cancer Cell Line Encyclopedia enables predictive modelling of anticancer drug sensitivity. It covers e. The RNA data was used to cluster genes according to their expression across cell lines. ). and hybrid capture exon sequencing of >1600 known or putative cancer genes across the CCLE. Currently, this Jan 8, 2021 · The Gene Expression Database (GXD; www. TKG0479 (Deposited from Tohoku Univ. Cancer cell line database of microarray and clinical samples A gene expression database for cancer cell line and clinical samples. , animals containing randomly inserted transgenes); animals that have been manipulated, either by substances, surgical procedures, or diet regimens; cultured tissues; cell types; or cell lines. The CCLE provides public access to genomic data, visualization and analysis for over 1100 cancer cell lines. g. CNA 311 197760. Add. Filter menu » Remove highlighting: Cell line expression cluster. Sections include the Tissue, Brain, Single Cell Type, Tissue Cell Type, Pathology, Disease Blood Atlas, Immune Cell, Blood Protein, Subcellular, Cell Line, Structure, and Interaction. Cancel. informatics. Expression Atlas provides gene expression results on more than 3,000 experiments from 40 different organisms, including metazoans and plants. The CCLE provides public access analysis and visualization of DNA copy number, mRNA expression, mutation data and more, for 1000 cancer cell lines. CellLineNavigator is a web-based compendium of cell line expression profiles and query tools. jax. Inclusion of RNA-seq data: Previously the Expression Profile Search was limited to classical expression data. Here we describe the Cancer Cell Line Encyclopedia (CCLE): a compilation of gene expression, chromosomal copy number and massively parallel sequencing data from 947 human cancer cell lines. Open Access. Filter menu » ProteomicsDB is a multi-omics and multi-organism resource for life science research. You don't need special access or authorization status to use the data in this project. Data type Column. 12. 0. In keeping with GXD's scope, we do not select data derived from transgenic mice (i. Cancer Cell Line Encyclopedia (Novartis Sep 5, 2023 · The CCLE 2019 cell line database 6 provides the transcriptomics data of a total of 1,019 cell lines collected from 35 sites in the human body (Fig. When coupled with pharmacological profiles for 24 anticancer drugs across 479 of the cell lines, this collection allowed identification of genetic, lineage Filter studies with selected data types Data type Studies Samples. 16. It provides the characteristics of the cell lines and their availability through distributors, allowing cell line requests to be made from collections and laboratories. 24: The 24Q2 release is now live and contains new cell lines and datasets, metadata and pipeline improvements. The indices and code Access gene expression results from more than 3,000 experiments. Although human experiments represent one third of Expression Atlas, we cover other animal species such as chicken, pig, cow or sheep. Expression cluster. The Cell line resource contains information of transcriptomics and proteomics of human cell lines. The clustering of 19508 genes expressed in cell lines resulted in 72 expression clusters, which have been manually annotated to describe common features in terms of function and specificity. Barretina J, Caponigro G, Stransky N, Venkatesan K, Margolin AA et al. Transcript expression levels summarized per gene and cancer in 28 cancers excluding Non-cancerous and Uncategorized in the table below. . 1a) including 973 primary and metastatic cancer Quickly find relevant cell line ‘omics data for your gene of interest, understand expression levels of a single gene or multiple genes across different cell lines and reveal gene signatures with powerful ‘omics data visualization. Ghandi M, Huang FW, Jané-Valbuena J, Kryukov GV, Lo CC et al. 03. LncExpDB identifies and characterizes cell-specific genes and consistently expressed genes for cancer cell lines, and further predicts lncRNA-mRNA interactions based on co-expression networks. a protein- and drug-centric interrogation as well as combined analysis via our analytics section. The Cancer Cell Line Encyclopedia is a database of gene expression, genotype, and drug sensitivity data for human cancer cell lines. It is is particularly helpful to those planning a cell-based screen or analyzing cell screen results. MD MB231: MDA MB435: Was originally considered to be a breast cancer cell line but has since been identified as a melanoma cell line. The Cancer Cell Line Encyclopedia (CCLE) project is an effort to conduct a detailed genetic characterization of a large panel of human cancer cell lines. See full list on sites. MOLT4: NCI 460: NCI H226: NCI H23: NCI H322M Cellosaurus, a cell line database, cell line catalogue, cell line ontology The Cancer Cell Line Encyclopedia (CCLE) project is an effort to conduct a detailed genetic characterization of a large panel of human cancer cell lines. The clustering of 18024 genes expressed in cell lines resulted in 44 expression clusters, which have been manually annotated to describe common features in terms of function and specificity. The CCLE provides public access analysis and mRNA microarray expression profiles for cancer cell lines: Measurement: gene expression by microarray: Association: gene-cell line associations by differential expression of gene across cell lines: Category: transcriptomics: Resource: Cancer Cell Line Encyclopedia Citation(s) View CCLE data by searching for gene, cell line or lineage on the DepMap portal Cancer Cell Line Encyclopedia (CCLE) The Cancer Cell Line Encyclopedia (CCLE) project started in 2008 as a collaboration between the Broad Institute , and the Novartis Institutes for Biomedical Research and its Genomics Institute of the Novartis Research Foundation. We chose the Expression Atlas as our data source because their team This tool lets you input a list of genes, then view modENCODE cell line expression level data for those genes. A immortal human breast-derived cell line cell that has the characteristics: Human cell line derived from breast adenocarcinoma. broadinstitute. Mar 25, 2025 · The addition of this functionality to the profile search allowed us to retire the Differential Expression search as all its utilities (and more) are now available in the redesigned Expression Profile search. RNA-Seq 90 26646. org/expression. (2019) Next-generation characterization of the Cancer Cell Line Encyclopedia. human, mouse, arabidopsis and rice. Cell line expression cluster. 24: The 24Q4 data and portal updates are now live! Please read the release notes for more details. Mutations 481 287781. The transcriptomics analysis covers 1206 human cell lines, corresponding to 28 cancer types, one non-cancerous group and one uncategorised group of cell lines, and includes classification based on specificity, distribution and expression clusters. Different visualization are available allowing e. 0 data, Affymetrix U133 2. This includes RNA sequencing, whole-exome sequencing, whole-genome sequencing, reverse-phase protein array, reduced representation bisulfite sequencing, microRNA expression profiling, global histone modification profiling, and metabolomics. The RNA data was used to cluster genes according to their expression across cell lines. The tab-separated file includes Ensembl gene identifier, analysed cancer cell line group, transcripts per million ("TPM"), protein-coding transcripts per million ("pTPM") and normalized expression ("nTPM"). The Cell Line Data Base (CLDB) is a reference information source for human and animal cell lines. Prefix cldb Alternative Prefixes hypercldb The CCLE public project contains Open Access sequencing data (in the form of reads aligned to the hg19 broad variant reference genome) for nearly 1000 cancer cell line samples, as available from cgHub on May 11, 2016. proteomics, transcriptomics, and phenomics data for e. The CellLineNavigator database is a web-based workbench for large scale comparisons of a vast amount of diverse cell lines to support experimental design in the fields of genomics, systems biology and translational biomedical research. Designed and maintained by Bioinformatics and Biostatistics Core,NTU Center of Genomic Medicine Oct 22, 2024 · The atlas for all human proteins in cells and tissues using various omics: antibody-based imaging, transcriptomics, MS-based proteomics, and systems biology. 06. Expanded characterizations of CCLE cancer cell lines. Summary. Citation(s) Barretina, J et al. ves lfuvyo sfda mto onihbi bioqs fzev kwcgal lrdv gmsewal qgs znf rlznwti rlcjx ier