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| Status |
Public on Nov 23, 2019 |
| Title |
Role of Ikaros in Early B-cell Development: Studies of IkZnF1-/- and IkZnF4-/- mutant mice |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Ikaros is a zinc finger (ZnF) transcription factor critical for B-cell development. The C2H2 zinc finger is the most prevalent DNA-binding motif in the mammalian proteome, with DNA-binding domains usually containing more tandem fingers than are needed for stable sequence-specific DNA recognition. To examine the reason for the frequent presence of multiple zinc fingers, we generated mice lacking finger 1 or finger 4 of the 4-finger DNA-binding domain of Ikaros (Schjerven et al., Nat Immunol, 2013; PMID: 24013668). Each mutant strain exhibited a specific subset of the phenotypes observed with Ikaros null mice, and revealed that different subsets of fingers within multi-finger transcription factors can regulate distinct target genes and biological functions. We here study the effect of these mutants on early B-cell development in the bone marrow (BM) with transcriptome profiling of sorted proB-cells (Hardy fractions B+C+C') from BM of wt and the two ZnF mutants (this GEO submission: RNA-Seq).
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| Overall design |
RNA-Seq from sorted primary proB cells of combined Hardy Fractions B+C+C' (BC), comparing wt, Ikaros-ZnF1-/- mutant and Ikaros-ZnF4-/- mutant (B220+, CD19+, IgM-, CD24+, BP1+/-).
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| Contributor(s) |
Schjerven H, Smale ST |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| Submission date |
Jul 05, 2012 |
| Last update date |
Nov 24, 2019 |
| Contact name |
Hilde Schjerven |
| Organization name |
UCSF
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| Department |
Laboratory Medicine
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| Street address |
513 Parnassus Ave
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| City |
San Francisco |
| State/province |
CA |
| ZIP/Postal code |
94143 |
| Country |
USA |
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| Platforms (1) |
| GPL13112 |
Illumina HiSeq 2000 (Mus musculus) |
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| Samples (3) |
| GSM956442 |
sorted_Hardy_fraction_BC_wt |
| GSM956443 |
sorted_Hardy_fraction_BC_Ikaros_ZnF1-/- |
| GSM956444 |
sorted_Hardy_fraction_BC_Ikaros_ZnF4-/- |
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| Relations |
| BioProject |
PRJNA170057 |
| SRA |
SRP014028 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE39123_RAW.tar |
346.5 Mb |
(http)(custom) |
TAR (of BEDGRAPH) |
| GSE39123_RPKM_sorted_fraction_BC.txt.gz |
343.2 Kb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
| Processed data are available on Series record |
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