| Title |
Comparison of the three-dimensional organization of sperm and fibroblast genomes using the Hi-C approach
|
|---|---|
| Published in |
Genome Biology, April 2015
|
| DOI | 10.1186/s13059-015-0642-0 |
| Pubmed ID | |
| Authors |
Nariman Battulin, Veniamin S Fishman, Alexander M Mazur, Mikhail Pomaznoy, Anna A Khabarova, Dmitry A Afonnikov, Egor B Prokhortchouk, Oleg L Serov |
| Abstract |
The 3D organization of the genome is tightly connected to its biological function. The Hi-C approach was recently introduced as a method that can be used to identify higher-order chromatin interactions genome-wide. The aim of this study was to determine genome-wide chromatin interaction frequencies using the Hi-C approach in mouse sperm cells and embryonic fibroblasts. The obtained data demonstrate that the 3D genome organizations of sperm and fibroblast cells show a high degree of similarity both with each other and with the previously described mouse embryonic stem cells. Both A- and B-compartments and topologically associated domains are present in spermatozoa and fibroblasts. Nevertheless, sperm cells and fibroblasts exhibit statistically significant differences between each other in the contact probabilities of defined loci. Tight packaging of the sperm genome results in an enrichment of long-range contacts compared with the fibroblasts. However, only 30% of the differences in the number of contacts are based on differences in the densities of their genome packages; the main source of the differences is the gain or loss of contacts that are specific for defined genome regions. We find that the dependence of the contact probability on genomic distance for sperm is close to the dependence predicted for the fractal globular folding of chromatin. Overall, we can conclude that 3D structure of genome is passed through generations without being dramatically changed in sperm cells. |
X Demographics
The data shown below were collected from the profiles of 13 X users who shared this research output. Click here to find out more about how the information was compiled.
Geographical breakdown
| Country | Count | As % |
|---|---|---|
| United Kingdom | 5 | 38% |
| United States | 2 | 15% |
| Sweden | 1 | 8% |
| New Zealand | 1 | 8% |
| Germany | 1 | 8% |
| Unknown | 3 | 23% |
Demographic breakdown
| Type | Count | As % |
|---|---|---|
| Members of the public | 9 | 69% |
| Scientists | 3 | 23% |
| Science communicators (journalists, bloggers, editors) | 1 | 8% |
Mendeley readers
The data shown below were compiled from readership statistics for 182 Mendeley readers of this research output. Click here to see the associated Mendeley record.
Geographical breakdown
| Country | Count | As % |
|---|---|---|
| United Kingdom | 2 | 1% |
| France | 1 | <1% |
| Lithuania | 1 | <1% |
| Russia | 1 | <1% |
| Spain | 1 | <1% |
| Japan | 1 | <1% |
| Unknown | 175 | 96% |
Demographic breakdown
| Readers by professional status | Count | As % |
|---|---|---|
| Student > Ph. D. Student | 52 | 29% |
| Researcher | 43 | 24% |
| Student > Bachelor | 16 | 9% |
| Student > Master | 15 | 8% |
| Student > Doctoral Student | 7 | 4% |
| Other | 20 | 11% |
| Unknown | 29 | 16% |
| Readers by discipline | Count | As % |
|---|---|---|
| Biochemistry, Genetics and Molecular Biology | 69 | 38% |
| Agricultural and Biological Sciences | 59 | 32% |
| Computer Science | 6 | 3% |
| Medicine and Dentistry | 5 | 3% |
| Physics and Astronomy | 3 | 2% |
| Other | 8 | 4% |
| Unknown | 32 | 18% |
Attention Score in Context
This research output has an Altmetric Attention Score of 15. This is our high-level measure of the quality and quantity of online attention that it has received. This Attention Score, as well as the ranking and number of research outputs shown below, was calculated when the research output was last mentioned on 01 March 2016.
All research outputs
#2,412,994
of 25,374,917 outputs
Outputs from Genome Biology
#1,961
of 4,467 outputs
Outputs of similar age
#30,279
of 279,244 outputs
Outputs of similar age from Genome Biology
#29
of 62 outputs
Altmetric has tracked 25,374,917 research outputs across all sources so far. Compared to these this one has done particularly well and is in the 90th percentile: it's in the top 10% of all research outputs ever tracked by Altmetric.
So far Altmetric has tracked 4,467 research outputs from this source. They typically receive a lot more attention than average, with a mean Attention Score of 27.6. This one has gotten more attention than average, scoring higher than 56% of its peers.
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We're also able to compare this research output to 62 others from the same source and published within six weeks on either side of this one. This one has gotten more attention than average, scoring higher than 53% of its contemporaries.