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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Jun 06, 2024 |
| Title |
Chromatin structure and gene expression signatures in FUS low and high expressed hematopoietic stem cells |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Other
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| Summary |
Aged hematopoietic stem cells (HSCs) exhibit compromised reconstitution capacity. In this study, we observed that the expression of FUS is increased in aged HSCs. We aimed to analysis the changes of chromatin structure and gene expression signatures in FUS low and FUS high expressed hematopoietic stem cell (lineage-, c-kit+ Sca-1+ CD34-) using tagHi-C and RNA-seq .We also conducted CTCF CUT&RUN experiment in Young(2 months) and Aged(30 months) hematopoietic stem cell (lineage-, c-kit+ Sca-1+ CD34-) to analysis CTCF signal changes. These hematopoietic stem cell (HSC) were purified from the bone marrow of mice with fus-gtp or different ages. Results provide insight how aberrant FUS mobility effects chromatin structure and promotes HSC aging .
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| Overall design |
We compare chromatin structure and gene expression signatures using Hi-C, RNA-seq, CTCF CUT&RUN in Fus low, Fus high, Aged, Young HSCs from the bone marrow of mice.
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| Contributor(s) |
Wang J |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
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| Submission date |
Jul 25, 2022 |
| Last update date |
Jun 06, 2024 |
| Contact name |
Jianwei Wang |
| E-mail(s) |
wangjianwei@ihcams.ac.cn
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| Organization name |
HAIHE LABORATORY OF CELL ECOSYSTEM
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| Street address |
10 Yuexin Street, Binhai New Area
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| City |
Tianjin |
| ZIP/Postal code |
300301 |
| Country |
China |
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| Platforms (1) |
| GPL21103 |
Illumina HiSeq 4000 (Mus musculus) |
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| Samples (44)
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| GSM6387249 |
Fus, low, HSCs, tagHi-C, rep1 |
| GSM6387250 |
Fus, low, HSCs, tagHi-C, rep2 |
| GSM6387251 |
Fus, high, HSCs, tagHi-C, rep1 |
| GSM6387252 |
Fus, high, HSCs, tagHi-C, rep2 |
| GSM6387253 |
Young, HSCs, CTCF, CUT&RUN |
| GSM6387254 |
Aged, HSCs, CTCF, CUT&RUN |
| GSM6387255 |
RNAseq30low-1 |
| GSM6387256 |
RNAseq30low-5 |
| GSM6387257 |
RNAseq32low-3 |
| GSM6387258 |
RNAseq32low-5 |
| GSM6387259 |
RNAseq32low-6 |
| GSM6387260 |
RNAseq36low.1 |
| GSM6387261 |
RNAseq36low.2 |
| GSM6387262 |
RNAseq36low.6 |
| GSM6387263 |
RNAseq30high-4 |
| GSM6387264 |
RNAseq30high-6 |
| GSM6387265 |
RNAseq32high-1 |
| GSM6387266 |
RNAseq32high-2 |
| GSM6387267 |
RNAseq32high-6 |
| GSM6387268 |
RNAseq36high-3 |
| GSM6387269 |
RNAseq36high-5 |
| GSM6387270 |
RNAseq36high-6 |
| GSM6387271 |
RNAseq30low-4 |
| GSM6387272 |
RNAseq30high-3 |
| GSM7105053 |
Aged, HSCs, tagHi-C, rep1 |
| GSM7105054 |
FusHigh,HSCs, CTCF, CUT&Tag,rep1 |
| GSM7105055 |
FusHigh,HSCs, CTCF, CUT&Tag,rep2 |
| GSM7105056 |
FusLow,HSCs, CTCF, CUT&Tag,rep1 |
| GSM7105057 |
FusLow,HSCs, CTCF, CUT&Tag,rep2 |
| GSM7105058 |
RNAseq_new_Aged1 |
| GSM7105059 |
RNAseq_new_Aged2 |
| GSM7105060 |
RNAseq_new_Aged3 |
| GSM7105061 |
RNAseqNewAgedKDFus1 |
| GSM7105062 |
RNAseqNewAgedKDFus2 |
| GSM7105063 |
RNAseqNewAgedKDFus3 |
| GSM7105064 |
RNAseqNewYoung1 |
| GSM7105065 |
RNAseqNewYoung2 |
| GSM7105066 |
RNAseqNewYoung3 |
| GSM7105067 |
RNAseqYoung1 |
| GSM7105068 |
RNAseqYoung2 |
| GSM7105069 |
RNAseqYoung3 |
| GSM7105070 |
RNAseqAged1 |
| GSM7105071 |
RNAseqAged2 |
| GSM7105072 |
RNAseqAged3 |
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| Relations |
| BioProject |
PRJNA862147 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE209715_FusHigh.allValidPairs.hic |
624.5 Mb |
(ftp)(http) |
HIC |
| GSE209715_FusHigh3_merge_202104.allValidPairs.hic |
609.5 Mb |
(ftp)(http) |
HIC |
| GSE209715_FusLow.allValidPairs.hic |
768.8 Mb |
(ftp)(http) |
HIC |
| GSE209715_FusLow1_merge_202104.allValidPairs.hic |
516.7 Mb |
(ftp)(http) |
HIC |
| GSE209715_HSC_FUS_RNA-seq_TPM_20210811.txt.gz |
1.9 Mb |
(ftp)(http) |
TXT |
| GSE209715_RAW.tar |
567.8 Mb |
(http)(custom) |
TAR (of BED, BW, 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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