Seqanswers Leaderboard Ad

Collapse

Announcement

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

  • which files to use from already-analysed ENCODE RNA-seq data?

    Hi all, I´m newbie in RNA-seq so I hope someone can help

    I need to use the information from two RNA-seq data from ENCODE but there are several file types that I can use:

    GSM958745_hg19_wgEncodeCaltechRnaSeqMcf7R2x75Il200ExonsGencV3cRep1V3
    GSM958745_hg19_wgEncodeCaltechRnaSeqMcf7R2x75Il200GeneDeNovoRep1V3
    GSM958745_hg19_wgEncodeCaltechRnaSeqMcf7R2x75Il200JunctionsRep1V3
    GSM958745_hg19_wgEncodeCaltechRnaSeqMcf7R2x75Il200SplicesRep2V2

    exons, genedenovo, junctions, splices... which file is more recommended? I guess all are important for different things, but I just want to take a general look

    I also have this one:

    GSM765388_hg19_wgEncodeCshlLongRnaSeqMcf7CellPapExonsDeNovo
    GSM765388_hg19_wgEncodeCshlLongRnaSeqMcf7CellPapTranscriptDeNovoV2
    GSM765388_hg19_wgEncodeCshlLongRnaSeqMcf7CellPapGeneDeNovoV2
    MCF-7_WholeCell_Ap_Long_CSHL_Contig.CSHL_LID8686-015WC-b1.LID8687-016WC-b2

    Can anyone give a bit of light in this path?

    Thanks in advance!

Latest Articles

Collapse

  • seqadmin
    Current Approaches to Protein Sequencing
    by seqadmin


    Proteins are often described as the workhorses of the cell, and identifying their sequences is key to understanding their role in biological processes and disease. Currently, the most common technique used to determine protein sequences is mass spectrometry. While still a valuable tool, mass spectrometry faces several limitations and requires a highly experienced scientist familiar with the equipment to operate it. Additionally, other proteomic methods, like affinity assays, are constrained...
    04-04-2024, 04:25 PM
  • seqadmin
    Strategies for Sequencing Challenging Samples
    by seqadmin


    Despite advancements in sequencing platforms and related sample preparation technologies, certain sample types continue to present significant challenges that can compromise sequencing results. Pedro Echave, Senior Manager of the Global Business Segment at Revvity, explained that the success of a sequencing experiment ultimately depends on the amount and integrity of the nucleic acid template (RNA or DNA) obtained from a sample. “The better the quality of the nucleic acid isolated...
    03-22-2024, 06:39 AM

ad_right_rmr

Collapse

News

Collapse

Topics Statistics Last Post
Started by seqadmin, 04-11-2024, 12:08 PM
0 responses
30 views
0 likes
Last Post seqadmin  
Started by seqadmin, 04-10-2024, 10:19 PM
0 responses
32 views
0 likes
Last Post seqadmin  
Started by seqadmin, 04-10-2024, 09:21 AM
0 responses
28 views
0 likes
Last Post seqadmin  
Started by seqadmin, 04-04-2024, 09:00 AM
0 responses
52 views
0 likes
Last Post seqadmin  
Working...
X