Helmholtz Gemeinschaft


CellFinder: a cell data repository

[thumbnail of Article] PDF (Article) - Requires a PDF viewer such as GSview, Xpdf or Adobe Acrobat Reader
[thumbnail of Supplementary Information] Other (Supplementary Information)

Item Type:Article
Title:CellFinder: a cell data repository
Creators Name:Stachelscheid, H., Seltmann, S., Lekschas, F., Fontaine, J.F., Mah, N., Neves, M., Andrade-Navarro, M.A., Leser, U. and Kurtz, A.
Abstract:CellFinder (http://www.cellfinder.org) is a comprehensive one-stop resource for molecular data characterizing mammalian cells in different tissues and in different development stages. It is built from carefully selected data sets stemming from other curated databases and the biomedical literature. To date, CellFinder describes 3394 cell types and 50 951 cell lines. The database currently contains 3055 microscopic and anatomical images, 205 whole-genome expression profiles of 194 cell/tissue types from RNA-seq and microarrays and 553 905 protein expressions for 535 cells/tissues. Text mining of a corpus of >2000 publications followed by manual curation confirmed expression information on ∼900 proteins and genes. CellFinder's data model is capable to seamlessly represent entities from single cells to the organ level, to incorporate mappings between homologous entities in different species and to describe processes of cell development and differentiation. Its ontological backbone currently consists of 204 741 ontology terms incorporated from 10 different ontologies unified under the novel CELDA ontology. CellFinder's web portal allows searching, browsing and comparing the stored data, interactive construction of developmental trees and navigating the partonomic hierarchy of cells and tissues through a unique body browser designed for life scientists and clinicians.
Keywords:Cell Line, Cell Physiological Phenomena, Cells, Cellular Structures, Data Mining, Factual Databases, Gene Expression Profiling, Internet, Kidney, Liver, Proteins, RNA, Animals
Source:Nucleic Acids Research
Publisher:Oxford University Press
Page Range:D950-D958
Date:1 January 2014
Official Publication:https://doi.org/10.1093/nar/gkt1264
PubMed:View item in PubMed

Repository Staff Only: item control page


Downloads per month over past year

Open Access
MDC Library