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• gene names and gene ids
  hi i have a annotate file of vcf using vcf annotate and in my out i dont have any gene ids thier...
• Cuffdiff output redundant genes
  Hello, I am using the Galaxy tool Cuffdiff to analyze the RNA-seq data. But for the output file "...
• gene names from ucsc id
  i have cufflink and cuffdiff output. i want gene names in ncbi ids and a tabulated format. i can ...
• How to convert gencode ID into ENSEMBL ID
  Hi, I have gene Id derived from gencode and I am trying to convert into gene names, but i think I...
• Genomic Coordinates To Enterz Gene Ids
  I have a list of around 3000 genomic coordinates of mouse genome and I would iike to extract gene...
• snpEff gene names
  Hello! I am new to snpEff. I built my database for my sample using gff3 files created from PROKK...
• htseq and cufflinks
  Hi, I have used HTSeq to count the no of mapped reads, the HTSeq gives me the ensemble ids but w...
• An application that retrieves the read mapping results of a specific gene
  Hi guys May I know where can i reference more about writing an application that is able to retri...
• Gene name annotation
  Hi, I've done cufflink-> cuff merge-> cuffdiff finally, I used reference annotation huma...
• DESeq2 Gene IDs
  I recently ran DESeq2 and got GeneID's that look like this... AY172335.1 GL456164.2 ...
• I can't find RefSeq ID in Text Manipulation > UniProt ID mapping and retrieval
  Hi, I am trying to covert RefSeq ID to gene name using Text Manipulation > UniProt ID mapping ...
• How to covnvert gene id to gene names
  Hi, I have been using Tophat, cufflink, cuffmerge and cuffdiff to analyse RNA seq data. I hav...
• Annotation file formats .gff3 to .gtf conversion
  Dear all, I used the Galaxy tool to convert the .gff3 annotation file to .gtf format. Going thro...
• Rna-Seq Analysis
  Since the pictures are too big for the mailling list. I will upload it in seperate emails. Dear ...
• Change Tracking Id to Gene name
  Hello, I'm not sure if this is something that can be done in galaxy, but if anyone knows how to ...
• How To Replace Ensembl Gene Id With Gene Names In Cuffdiff Output?
  Hi all, I had the following Cuffdiff output from genes defferetial expression testing: test_id ...
• Rna-Seq Analysis
  Dear all, I am using Galaxy for RNA-Seq analysis. I expect two lists: differentially expressed tr...
• How To Transfer Gene Id Into Protein Id
  Hi, I have some refseq gene id, like NM_*****. How can I transfer these gene id into protein id...
• Add Missing Attributes to GTF
  I'm working with the ferret genome (MusPutFur1.0.69) and I'm using the Ensembl GTF file. However,...
• converty cuff id to gene id
  Hi, wondering if anyone could give me some clues how to convert cuff gene id to normal gene id so...
• Batch conversion of ID to gene symbol
  I'm an old school molecular biologist who studies gene expression but is quite new to bio-computi...
• Gene Names From Cuffdiff Data
  How does one get gene names when using cuffdiff when looking at "gene differential expression tes...