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PMID: 16381943 Published · ppublish English Journal Article Research Support, Non-U.S. Gov't

ITTACA: a new database for integrated tumor transcriptome array and clinical data analysis.

Nucleic acids research ·Vol. 34 ·No. Database issue ·2006-01-01 ·Pages D613-6

Elfilali A, Lair S, Verbeke C, La Rosa P, Radvanyi F, Barillot E

Abstract

Transcriptome microarrays have become one of the tools of choice for investigating the genes involved in tumorigenesis and tumor progression, as well as finding new biomarkers and gene expression signatures for the diagnosis and prognosis of cancer. Here, we describe a new database for Integrated Tumor Transcriptome Array and Clinical data Analysis (ITTACA). ITTACA centralizes public datasets containing both gene expression and clinical data. ITTACA currently focuses on the types of cancer that are of particular interest to research teams at Institut Curie: breast carcinoma, bladder carcinoma and uveal melanoma. A web interface allows users to carry out different class comparison analyses, including the comparison of expression distribution profiles, tests for differential expression and patient survival analyses. ITTACA is complementary to other databases, such as GEO and SMD, because it offers a better integration of clinical data and different functionalities. It also offers more options for class comparison analyses when compared with similar projects such as Oncomine. For example, users can define their own patient groups according to clinical data or gene expression levels. This added flexibility and the user-friendly web interface makes ITTACA especially useful for comparing personal results with the results in the existing literature. ITTACA is accessible online at http://bioinfo.curie.fr/ittaca.

MeSH Terms
Breast Neoplasms/diagnosis Carcinoma/diagnosis Databases, Genetic Gene Expression Gene Expression Profiling Genes, Neoplasm Humans Internet Melanoma/diagnosis Neoplasms/diagnosis,genetics,metabolism Survival Analysis Systems Integration Transcription, Genetic Urinary Bladder Neoplasms/diagnosis User-Computer Interface Uveal Neoplasms/diagnosis
Authors & Affiliations
6 authors, click to expand affiliations / ORCID
Elfilali Adil
Institut Curie, Service Bioinformatique, 26 rue d'Ulm, Paris, 75248 cedex 05, France.
Lair Séverine
Verbeke Catia
La Rosa Philippe
Radvanyi François
Barillot Emmanuel
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Article Info
Journal
Nucleic acids research
Abbr.
Nucleic Acids Res
ISSN
1362-4962
DOI
10.1093/nar/gkj022
Published
2006-01-01
Pages
D613-6
Language
English
Region
England
NLM ID
0411011
PMCID
PMC1347385
Subset
IM
External Links
PubMed source DOI: 10.1093/nar/gkj022 PMC Full Text View journal details
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