Unconfigured Ad

Collapse
X
Collapse
 
  • Page of 1
  • Filter
  • Time
  • Show
Clear All
new posts
Previous template Next
  • keithforest
    Junior Member
    • Aug 2010
    • 7
    #1

    mouse bone marrow rna-seq data

    I'm new to the forum, so my apologies if there is a better place for this question.

    I am looking for rna-seq data from mouse bone marrow. Does anyone know if any is available, or where to look for it? I've tried GEO and couldn't find any relevant samples.

    Thanks in advance.
    Tags: bone marrow, mouse, rna-seq
  • Joann
    Senior Member
    • Oct 2008
    • 230
    #2
    Expression profiling by array

    You are close. Recently posted here in the literature watch section:

    Bonadies N, Foster SD, Chan WI, Kvinlaug BT et al. Genome-wide analysis of transcriptional reprogramming in mouse models of acute myeloid leukaemia.
    PLoS One 2011 Jan 28;6(1):e16330. PMID: 21297973
    doi:10.1371/journal.pone.0016330

    Genome-Wide Analysis of Transcriptional Reprogramming in Mouse Models of Acute Myeloid Leukaemia
    http://dx.doi.org/10.1371/journal.pone.0016330
    Acute leukaemias are commonly caused by mutations that corrupt the transcriptional circuitry of haematopoietic stem/progenitor cells. However, the mechanisms underlying large-scale transcriptional reprogramming remain largely unknown. Here we investigated transcriptional reprogramming at genome-scale in mouse retroviral transplant models of acute myeloid leukaemia (AML) using both gene-expression profiling and ChIP-sequencing. We identified several thousand candidate regulatory regions with altered levels of histone acetylation that were characterised by differential distribution of consensus motifs for key haematopoietic transcription factors including Gata2, Gfi1 and Sfpi1/Pu.1. In particular, downregulation of Gata2 expression was mirrored by abundant GATA motifs in regions of reduced histone acetylation suggesting an important role in leukaemogenic transcriptional reprogramming. Forced re-expression of Gata2 was not compatible with sustained growth of leukaemic cells thus suggesting a previously unrecognised role for Gata2 in downregulation during the development of AML. Additionally, large scale human AML datasets revealed significantly higher expression of GATA2 in CD34+ cells from healthy controls compared with AML blast cells. The integrated genome-scale analysis applied in this study represents a valuable and widely applicable approach to study the transcriptional control of both normal and aberrant haematopoiesis and to identify critical factors responsible for transcriptional reprogramming in human cancer.


    Expression profiling by array on wild type lin-/kit+ bone marrow.
    GEO accession GSE25539

    Comment

    Previous template Next

    Latest Articles

    Collapse
    • GATTACAT
      Reply to Nine Things a Sample Prep Scientist Thinks About Before Sequencing
      by GATTACAT
      Love this - good data definitely starts from good input, and poor input can only give relatively poor data. I particularly like the mention of Nanodrop/absorbance based methods for quantification. It's such a toss up if you'll get an accurate reading or what amounts to a randomly generated number, and a lot of library/sequencing related issues can be traced back to poor quant.
      07-01-2026, 11:43 AM
    • SEQadmin2
      Nine Things a Sample Prep Scientist Thinks About Before Sequencing
      by SEQadmin2


      I’m not a sequencing expert. I’m a purification scientist who uses NGS to evaluate workflows my group develops. With this perspective, we think about the sample first and the NGS workflow second. The sequencer is an exceptionally honest reporter, but it can only report on what you give it, so whether you get clean, interpretable data from an NGS workflow is largely determined before you begin.

      Here are nine questions we think about, in roughly the order they matter, before...
      06-18-2026, 07:11 AM
    View All

    ad_right_rmr

    Collapse

    News

    Collapse
    Topics Statistics Last Post
    High-Resolution Sequencing Exposes Hidden Toxoplasma Diversity by SEQadmin2
    Started by SEQadmin2, 07-02-2026, 11:08 AM
    0 responses
    25 views
    0 reactions
    		 Last Post SEQadmin2
    by SEQadmin2
    07-02-2026, 11:08 AM  
    New AI Model Captures Long-Range Genomic Signals to Improve RNA Splice Site Prediction by SEQadmin2
    Started by SEQadmin2, 06-30-2026, 05:37 AM
    0 responses
    23 views
    0 reactions
    		 Last Post SEQadmin2
    by SEQadmin2
    06-30-2026, 05:37 AM  
    Large-Scale Protein Screen Uncovers Hidden Regulators of Alternative Polyadenylation by SEQadmin2
    Started by SEQadmin2, 06-26-2026, 11:10 AM
    0 responses
    23 views
    0 reactions
    		 Last Post SEQadmin2
    by SEQadmin2
    06-26-2026, 11:10 AM  
    Whole-Genome Sequencing Traces Faroe Islands Ancestry to a North Atlantic Founder Population by SEQadmin2
    Started by SEQadmin2, 06-17-2026, 06:09 AM
    0 responses
    55 views
    0 reactions
    		 Last Post SEQadmin2
    by SEQadmin2
    06-17-2026, 06:09 AM  
    View All
    Working...