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GeneCoDis3 - Gene Annotation Co-ocurrence Discovery | Analysis

Web tool for modular and singular enrichment analysis

http://genecodis.cnb.csic.es/

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GeneCoDis3 - Gene Annotation Co-ocurrence Discovery | Analysis | genecodis.cnb.csic.es Reviews
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Web tool for modular and singular enrichment analysis
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GeneCoDis3 - Gene Annotation Co-ocurrence Discovery | Analysis | genecodis.cnb.csic.es Reviews

https://genecodis.cnb.csic.es

Web tool for modular and singular enrichment analysis

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1

GeneCoDis3 - Gene Annotation Co-ocurrence Discovery | Web Services

http://genecodis.cnb.csic.es/webservices

The Web Service provides an API to access the same analysis as the web site at http:/ genecodis.cnb.csic.es, but in a programmatic way. The API works asynchronous, an analysis job is sent to execute, the status is queried until the job is finished and then, if no error arised, the results are gathered. All the information to and from the web service is formated as numbers of text strings. The results are represented in an XML structure (see the results section for a description). For example in Ruby:.

2

GeneCoDis3 - Gene Annotation Co-ocurrence Discovery | Help

http://genecodis.cnb.csic.es/help

GeneCodis3 is a web-based tool for the ontological analysis of large lists of genes. It can be used to determine biological annotations or combinations of annotations that are significantly associated to a list of genes under study with respect to a reference list. As well as single annotations, this tool allows users to simultaneously evaluate annotations from different sources, for example Biological Process and Cellular Component categories of Gene Ontology. InterPro domains keywords from http:/ www&#...

3

GeneCoDis3 - Gene Annotation Co-ocurrence Discovery | Analysis

http://genecodis.cnb.csic.es/analysis/job-yeast

Job not found. If job id is correct, maybe it was removed from our server. If you use GeneCodis, please include the following three publications in your references:. Tabas-Madrid D, Nogales-Cadenas R, Pascual-Montano A: GeneCodis3: a non-redundant and modular enrichment analysis tool for functional genomics. Nucleic Acids Research 2012; doi: 10.1093/nar/gks402. Please, submit suggestions, comments and bug reports to:.

4

GeneCoDis3 - Gene Annotation Co-ocurrence Discovery | Analysis

http://genecodis.cnb.csic.es/analysis

Modular and Singular Enrichment Analysis [? Modular and Singular Enrichment Analysis. Insert a list of genes and select the annotations in which you are interested. GeneCodis3 will perform a Modular Enrichment Analysis with all these annotations, and a Singular Enrichment Analysis for each of the selected annotations. 1 Select the organism [? 2 Select the annotations [? Select one or more categories that you want include in the analysis. GeneCodis3 currently supports:. Transcription Factors. In yeast...

5

GeneCoDis3 - Gene Annotation Co-ocurrence Discovery

http://genecodis.cnb.csic.es/allowed

GeneCodis3 accepts several types of Gene IDs (those contained in the ensembl database). The following table contains an example of allowed IDs for some organisms:. AT5G02740, MYB117, TPX1. NP 974724, NP 568106. KCMA1 BOVIN, LOC615835, MEFV, NP 001070525.1, XR 027305.1. AAK54352, AAK54353, AAK54354, AAB03663, AAW57303. Bt5463.S1 a at, Bt.546.2.S1 at. Orf198663, IPF26271.1, IPF7053.2, Contig4-1791 0001, orf6.4928, orf6.5620, CA2861. Sqv-5, W04A8.1. T24D11b.1, Y53C10A.10.1. NP 001021640, NP 001021639. Scl02...

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GeneTerm Linker

http://gtlinker.cnb.csic.es/gtset/help

Is a new algorithm for functional annotation of a list of genes. That provides a set of functional metagroups. In a single output. It includes a concurrent enrichment analysis. Followed by a non-redundant reciprocal linkage of genes and biological terms. And it uses fuzzy reciprocal linkage between genes and terms to unravel their functional convergence and associations. Can be used through this web site and we include below a simple HELP. The complete description of the algorithm with all its steps and ...

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GeneCoDis3 - Gene Annotation Co-ocurrence Discovery | Analysis

Modular and Singular Enrichment Analysis [? Modular and Singular Enrichment Analysis. Insert a list of genes and select the annotations in which you are interested. GeneCodis3 will perform a Modular Enrichment Analysis with all these annotations, and a Singular Enrichment Analysis for each of the selected annotations. 1 Select the organism [? 2 Select the annotations [? Select one or more categories that you want include in the analysis. GeneCodis3 currently supports:. Transcription Factors. In yeast...

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