Seqanswers Leaderboard Ad

Collapse

Announcement

Collapse
No announcement yet.
X
 
  • Filter
  • Time
  • Show
Clear All
new posts

  • Brief gene function annotations

    Hello,

    After running the sequencing reads through an exome sequencing pipeline, followed by ANNOVAR annotation, I have written a Python script that extracts the relevant info from the ANNOVAR output into an Excel sheet. I usually end up with a list of 20-40 genes for each category (e.g. splicing, nonsynonymous_SNV, frameshift_insertion, etc.).

    It would be useful to have an additional column next to the gene names with a one sentence description of their function. It seems ANNOVAR itself doesn't provide such annotation so I was wondering what's the best way for obtaining this info.

    I am thinking of writing a script to parse the HTML source file of sites such as GeneOntology or OMIM but want to see if this has already been done, for example if there are text files available with this information for download.

    Thanks in advance for your help.

Latest Articles

Collapse

  • seqadmin
    Genetic Variation in Immunogenetics and Antibody Diversity
    by seqadmin



    The field of immunogenetics explores how genetic variations influence immune responses and susceptibility to disease. In a recent SEQanswers webinar, Oscar Rodriguez, Ph.D., Postdoctoral Researcher at the University of Louisville, and Ruben Martínez Barricarte, Ph.D., Assistant Professor of Medicine at Vanderbilt University, shared recent advancements in immunogenetics. This article discusses their research on genetic variation in antibody loci, antibody production processes,...
    11-06-2024, 07:24 PM
  • seqadmin
    Choosing Between NGS and qPCR
    by seqadmin



    Next-generation sequencing (NGS) and quantitative polymerase chain reaction (qPCR) are essential techniques for investigating the genome, transcriptome, and epigenome. In many cases, choosing the appropriate technique is straightforward, but in others, it can be more challenging to determine the most effective option. A simple distinction is that smaller, more focused projects are typically better suited for qPCR, while larger, more complex datasets benefit from NGS. However,...
    10-18-2024, 07:11 AM

ad_right_rmr

Collapse

News

Collapse

Topics Statistics Last Post
Started by seqadmin, 11-08-2024, 11:09 AM
0 responses
211 views
0 likes
Last Post seqadmin  
Started by seqadmin, 11-08-2024, 06:13 AM
0 responses
156 views
0 likes
Last Post seqadmin  
Started by seqadmin, 11-01-2024, 06:09 AM
0 responses
80 views
0 likes
Last Post seqadmin  
Started by seqadmin, 10-30-2024, 05:31 AM
0 responses
27 views
0 likes
Last Post seqadmin  
Working...
X