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Online Ressources and Tools

Immunology / Metabolism / Cancer – Online Ressources and Tools (a selection)

Ressources

Immgen
http://www.immgen.org/
The Immunological Genome Project (ImmGen) is a collaborative scientific research project that is currently building a gene-expression database for all characterized immune cells in the mouse. The overarching goal of the project is to computationally reconstruct the gene regulatory network in immune cells. All data generated as part of ImmGen are made freely and publicly available at the ImmGen portal.
Heng, T. S., M. W. Painter and C. Immunological Genome Project (2008). "The Immunological Genome Project: networks of gene expression in immune cells." Nat Immunol 9(10): 1091-1094.

 

Immport

https://www.immport.org/resources/

The ImmPort project provides advanced information technology support in the archiving and exchange of scientific data for the diverse community of life science researchers supported by NIAID/DAIT and serves as a long-term, sustainable archive of research and clinical data. The core component of ImmPort is an extensive data warehouse containing experimental data and metadata describing the purpose of the study and the methods of data generation.
The Immunology Database and Analysis Portal (ImmPort) has been developed under the ImmPort Contract by the Northrop Grumman Information Technology Health Solutions team for the National Institutes of Health (NIH), National Institute of Allergy and Infectious Diseases (NIAID), Division of Allergy, Immunology, and Transplantation (DAIT). ImmPort is a partnership between researchers at the University of California-San Francisco, Stanford University, the University of Buffalo, the Technion - Israel Institute of Technology, and Northrop Grumman.

 

Molecular Ancestry Network

https://manet.illinois.edu/

 

Human Protein Atlas (and more...)

https://www.proteinatlas.org/

 

Human Metabolome Database

https://hmdb.ca/

 

Metabolic Atlas

https://www.metabolicatlas.org/

 

Immunology Ressources

http://www.immgen.org/

https://www.guidetoimmunopharmacology.org/immuno/

 

Tools

Instant Clue (data analysis, graphs, statistics)

http://www.instantclue.uni-koeln.de/

 

MetaboAnalyst

https://www.metaboanalyst.ca/MetaboAnalyst/ModuleView.xhtml

statistical, functional and integrative analysis of metabolomics data

 

GEO2Enrichr

http://amp.pharm.mssm.edu/g2e/

GEO2Enrichr is a web application and two browser extensions designed to ease the extraction of signatures from studies posted on the Gene Expression Omnibus (GEO) database as well as extract signatures from your own data tables.

 

Gene Set Enrichment

https://amp.pharm.mssm.edu/Enrichr/

 

Gene Ontology Analysis

http://geneontology.org/

 

ConsensusCluster

https://pubmed.ncbi.nlm.nih.gov/20141333/
https://bioinformaticshome.com/tools/descriptions/ConsensusCluster.html

a software tool for unsupervised cluster discovery in numerical data

 

Pathways & Gene Expression Analysis

http://www.pathwaycommons.org/pc/home.do/

 

RNA Seq Data Analysis

https://www.rna-seqblog.com/how-to-analyze-rna-seq-data/

http://bioinformatics.sdstate.edu/idep93/