User: EagleEye

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EagleEye4.2k
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Investigating field of biology by applying logics of computer science, statistics and mathematics.

Posts by EagleEye

<prev • 710 results • page 1 of 71 • next >
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Answer: A: Downstream applications of Differential transcript expression
... [GeneSCF][1] [1]: https://www.biostars.org/p/108669/ ...
written 15 hours ago by EagleEye4.2k
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Comment: C: How to download lincRNAs list (human) from RefSeq database ?
... May I know how you say Refseq as 'high quality set' (in which context) ?? Did you first of all check the links I provided ? All those repositories are standard repositories used for lncRNA analysis. If you want information on refseq genes check [Refseq FTP][1] [1]: ftp://ftp.ncbi.nlm.nih.gov/ ...
written 23 hours ago by EagleEye4.2k
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Answer: A: How do I draw a heatmap in r with two colors in a cell?
... I guess you are looking for [OncoPrint][1] [1]: https://bioconductor.org/packages/release/bioc/vignettes/ComplexHeatmap/inst/doc/s8.oncoprint.html ...
written 1 day ago by EagleEye4.2k
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Answer: A: How to download lincRNAs list (human) from RefSeq database ?
... I can suggest you to use, 1) Gencode 'Long non-coding RNA gene annotation' http://www.gencodegenes.org/releases/current.html 2) Ensembl (Extract only lincRNA) ftp://ftp.ensembl.org/pub/release-89/gtf/homo_sapiens/ 3) noncode http://www.noncode.org/download.php 4) FANTOM CAT http://fantom. ...
written 1 day ago by EagleEye4.2k
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Answer: A: how to know the putative function of a gene
... Take a look at [GeneSCF][1]. [1]: https://www.biostars.org/p/108669/ ...
written 3 days ago by EagleEye4.2k
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Answer: A: How To Get Gene names +10Kb and -10Kb
... BED tools [Closest][1] [1]: http://bedtools.readthedocs.io/en/latest/content/tools/closest.html ...
written 4 days ago by EagleEye4.2k
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Answer: A: multi-omics data gene set enrichment analysis
... Sorry non-R solution: With [GeneSCF][1] you can keep all the list of genes (multiple files) in a single folder and provide that path in '**geneSCF_batch**'. It will perform enrichment analysis for individual list and automatically creats output for every list. Also choose the tool that regularly u ...
written 4 days ago by EagleEye4.2k
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Answer: A: Gene Ontology R Package Query Directly from the Gene Ontology Consortium
... Hi, [GeneSCF][1]: You can retrieve the current data from the repository. GeneSCF is specially designed for that. [1]: https://www.biostars.org/p/108669/ ...
written 5 days ago by EagleEye4.2k
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Comment: C: Returning gene functional annotations with gene symbols as input (using mygene B
... Sorry I do not have any solution in R. All the best for you to solve your task. ...
written 6 days ago by EagleEye4.2k
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Answer: A: Cellular location of list of genes
... Use geneontology GO_CC in [GeneSCF][1] enrichment analysis. [1]: https://www.biostars.org/p/108669/ ...
written 6 days ago by EagleEye4.2k

Latest awards to EagleEye

Scholar 10 days ago, created an answer that has been accepted. For A: How to interpret the result of GO analysis using Ontologizer ?
Teacher 10 days ago, created an answer with at least 3 up-votes. For A: How to check the type of identifier from ensembl?
Appreciated 5 weeks ago, created a post with more than 5 votes. For A: How to check the type of identifier from ensembl?
Appreciated 5 weeks ago, created a post with more than 5 votes. For A: How to check the type of identifier from ensembl?
Teacher 5 weeks ago, created an answer with at least 3 up-votes. For A: Clinical Survival data of TCGA
Teacher 8 weeks ago, created an answer with at least 3 up-votes. For A: Clinical Survival data of TCGA
Teacher 8 weeks ago, created an answer with at least 3 up-votes. For A: Clinical Survival data of TCGA
Good Answer 8 weeks ago, created an answer that was upvoted at least 5 times. For A: Something better than GSEA?
Scholar 8 weeks ago, created an answer that has been accepted. For A: How to interpret the result of GO analysis using Ontologizer ?
Appreciated 9 weeks ago, created a post with more than 5 votes. For A: How to check the type of identifier from ensembl?
Teacher 9 weeks ago, created an answer with at least 3 up-votes. For A: Clinical Survival data of TCGA
Appreciated 10 weeks ago, created a post with more than 5 votes. For A: How to check the type of identifier from ensembl?
Teacher 10 weeks ago, created an answer with at least 3 up-votes. For A: Clinical Survival data of TCGA
Appreciated 11 weeks ago, created a post with more than 5 votes. For A: How to check the type of identifier from ensembl?
Teacher 11 weeks ago, created an answer with at least 3 up-votes. For A: Clinical Survival data of TCGA
Teacher 3 months ago, created an answer with at least 3 up-votes. For A: Clinical Survival data of TCGA
Scholar 3 months ago, created an answer that has been accepted. For A: How to interpret the result of GO analysis using Ontologizer ?
Teacher 3 months ago, created an answer with at least 3 up-votes. For A: Clinical Survival data of TCGA
Scholar 3 months ago, created an answer that has been accepted. For A: How to interpret the result of GO analysis using Ontologizer ?
Scholar 4 months ago, created an answer that has been accepted. For A: How to interpret the result of GO analysis using Ontologizer ?
Commentator 4 months ago, created a comment with at least 3 up-votes. For C: Survey: What colour theme do you use in your terminal?
Scholar 4 months ago, created an answer that has been accepted. For A: How to interpret the result of GO analysis using Ontologizer ?
Teacher 4 months ago, created an answer with at least 3 up-votes. For A: Clinical Survival data of TCGA
Teacher 4 months ago, created an answer with at least 3 up-votes. For A: Clinical Survival data of TCGA
Scholar 5 months ago, created an answer that has been accepted. For A: How to get all disease-causing genes from OMIM?

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