Back

HIRA-SETDB1-H3K9me3 axis regulate chromatin architecture in chronic myeloid leukemia cells

Shirude, M. B.; Devarajan, A.; Dutta, D.

2024-11-03 cancer biology
10.1101/2024.11.01.621462 bioRxiv
Show abstract

Histone cell cycle regulator A (HIRA) confers chromatin accessibility and regulates developmental hematopoiesis. But whether HIRA displays similar role in leukemia, a condition caused by abnormalities during hematopoiesis, remain elusive. Here we show that HIRA interact with heterochromatin cluster in Chronic Myeloid Leukemia, K562, cells. FRAP, FLIM-FRET and ATAC-sequencing analysis revealed increased chromatin compaction, altered spatial distribution of chromatin towards nuclear periphery and loss in chromatin accessibility at the promoter and gene bodies upon downregulation of HIRA in K562 cells. Enhanced chromatin compaction was attributed to increased histone H3K9me3 level mediated by histone methyltransferase SETDB1. Incorporation of histone H3.3 within the SETDB1 promoter in HIRA-knockdown cells induced SETDB1 expression. HIRA-SETDB1-H3K9me3 axis regulate the chromatin architecture in CML cells leading to inhibition of proliferation while induction in differentiation. We anticipate that the exploration of this axis would introduce new paradigm in understanding and targeting molecules that could influence CML disease progression.

Matching journals

The top 18 journals account for 50% of the predicted probability mass.

1
eLife
● 5828 papers in training set
Top 20%
6.1%
Similar papers in this journal
2
Scientific Reports
○ 3612 papers in training set
Top 13%
6.1%
Similar papers in this journal
3
iScience
○ 1154 papers in training set
Top 3%
4.8%
Similar papers in this journal
4
Cell Death Discovery
○ 58 papers in training set
Top 0.1%
4.8%
Similar papers in this journal
5
Molecular and Cellular Biology
○ 47 papers in training set
Top 0.2%
3.2%
Similar papers in this journal
6
Life Science Alliance
● 285 papers in training set
Top 1%
3.2%
7
Biology Open
● 156 papers in training set
Top 0.8%
2.7%
8
Cells
○ 249 papers in training set
Top 1%
2.6%
9
EMBO Reports
○ 263 papers in training set
Top 3%
2.1%
10
Biochimica et Biophysica Acta (BBA) - Molecular Cell Research
○ 29 papers in training set
Top 0.2%
1.9%
11
PLOS ONE
● 5266 papers in training set
Top 45%
1.9%
12
The FASEB Journal
○ 194 papers in training set
Top 2%
1.9%
13
Journal of Cell Science
● 393 papers in training set
Top 3%
1.7%
14
Oncogene
○ 85 papers in training set
Top 1%
1.7%
15
Epigenetics
○ 50 papers in training set
Top 0.3%
1.7%
16
International Journal of Molecular Sciences
○ 494 papers in training set
Top 8%
1.7%
17
Experimental Cell Research
○ 28 papers in training set
Top 0.3%
1.7%
18
Frontiers in Cell and Developmental Biology
○ 233 papers in training set
Top 3%
1.7%
50% of probability mass above
19
Genes to Cells
○ 25 papers in training set
Top 0.2%
1.7%
20
Cell Cycle
○ 17 papers in training set
Top 0.2%
1.7%
21
PLOS Genetics
● 862 papers in training set
Top 8%
1.4%
22
Cellular and Molecular Life Sciences
○ 96 papers in training set
Top 1%
1.4%
23
Cell Stress and Chaperones
○ 11 papers in training set
Top 0.1%
1.4%
24
Life Sciences
○ 27 papers in training set
Top 0.6%
1.4%
25
Nucleic Acids Research
◐ 1281 papers in training set
Top 10%
1.4%
26
Epigenetics & Chromatin
52 papers in training set
Top 0.4%
1.3%
27
Cancers
○ 213 papers in training set
Top 4%
1.1%
28
Journal of Experimental & Clinical Cancer Research
○ 25 papers in training set
Top 0.6%
1.1%
29
Computers in Biology and Medicine
○ 128 papers in training set
Top 4%
1.1%
30
Oncotarget
○ 18 papers in training set
Top 0.3%
1.0%

"Similar papers" are the closest papers from that journal in the model's embedding space. They show what the match is built on, but the ranking comes mostly from a classifier over the whole training set, not from these examples alone.