Ontology highlight
ABSTRACT:
PROVIDER: PRJNA285468 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR1995570.fastq.gz | Fastqsanger.gz | |||
| SRR1995580.fastq.gz | Fastqsanger.gz | |||
| SRR1995590.fastq.gz | Fastqsanger.gz | |||
| SRR1995600.fastq.gz | Fastqsanger.gz | |||
| SRR1995610.fastq.gz | Fastqsanger.gz |
Items per page: 5 1 - 5 of 409 |
Similar Datasets
Project description:Genome-wide maps of nuclear lamina interactions in single human cells (CEL-seq)
| PRJNA283181 | ENA
Project description:Mammalian interphase chromosomes interact with the nuclear lamina (NL) through hundreds of large Lamina Associated Domains (LADs). We report a method to map NL contacts genome-wide in single human cells. Analysis of ~400 maps reveals a core architecture of gene-poor LADs that contact the NL with high cell-to-cell consistency, interspersed by LADs with more variable NL interactions. The variable contacts are more sensitive to a change in genome ploidy than the consistent contacts. Single-cell maps indicate that NL contacts involve multivalent interactions over hundreds of kilobases. Moreover, we observe extensive intra-chromosomal coordination of NL contacts, even over tens of megabases. Such coordinated loci exhibit preferential interactions as detected by Hi-C. Finally, single-cell gene expression and chromatin accessibility analysis shows that loci with consistent NL contacts are expressed at lower levels and are more consistently inaccessible than loci with lower contact frequencies. These results highlight fundamental principles of single cell chromatin organization. Hi-C Data
2015-09-24 | E-GEOD-69841 | biostudies-arrayexpress
Project description:Mammalian interphase chromosomes interact with the nuclear lamina (NL) through hundreds of large Lamina Associated Domains (LADs). We report a method to map NL contacts genome-wide in single human cells. Analysis of ~400 maps reveals a core architecture of gene-poor LADs that contact the NL with high cell-to-cell consistency, interspersed by LADs with more variable NL interactions. The variable contacts are more sensitive to a change in genome ploidy than the consistent contacts. Single-cell maps indicate that NL contacts involve multivalent interactions over hundreds of kilobases. Moreover, we observe extensive intra-chromosomal coordination of NL contacts, even over tens of megabases. Such coordinated loci exhibit preferential interactions as detected by Hi-C. Finally, single-cell gene expression and chromatin accessibility analysis shows that loci with consistent NL contacts are expressed at lower levels and are more consistently inaccessible than loci with lower contact frequencies. These results highlight fundamental principles of single cell chromatin organization. In this dataset, single-cell mRNA sequencing results from 96 single KBM7 cells have been deposited
2015-09-24 | E-GEOD-68596 | biostudies-arrayexpress
Project description:Genome-wide maps of nuclear lamina interactions in single human cells. (Hi-C, KBM7 haploid)
| PRJNA286897 | ENA
Project description:Genome-wide maps of nuclear lamina interactions in AML12 cells.
| PRJNA297690 | ENA
Project description:Mammalian interphase chromosomes interact with the nuclear lamina (NL) through hundreds of large Lamina Associated Domains (LADs). We report a method to map NL contacts genome-wide in single human cells. Analysis of ~400 maps reveals a core architecture of gene-poor LADs that contact the NL with high cell-to-cell consistency, interspersed by LADs with more variable NL interactions. The variable contacts are more sensitive to a change in genome ploidy than the consistent contacts. Single-cell maps indicate that NL contacts involve multivalent interactions over hundreds of kilobases. Moreover, we observe extensive intra-chromosomal coordination of NL contacts, even over tens of megabases. Such coordinated loci exhibit preferential interactions as detected by Hi-C. Finally, single-cell gene expression and chromatin accessibility analysis shows that loci with consistent NL contacts are expressed at lower levels and are more consistently inaccessible than loci with lower contact frequencies. These results highlight fundamental principles of single cell chromatin organization.
2015-09-24 | GSE69373 | GEO
Project description:Genome-wide maps of nuclear lamina interactions in single human cells. (DamID LaminB1, clone-14, diploid)
| PRJNA282151 | ENA
Project description:Genome-wide maps of nuclear lamina interactions in single human cells. (DamID LaminB1, clone-14, haploid)
| PRJNA282152 | ENA
Project description:Regulation of gene expression is highly conserved between vertebrates, yet the genomic binding patterns of transcription factors are poorly conserved, suggesting that other mechanisms may contribute. The spatial organization of chromosomes in the nucleus is known to affect gene activity, but it is unclear to what extent this organization is conserved in evolution. Genome-wide maps of nuclear lamina (NL) interactions show that human and mouse chromosomes have highly similar folding patterns inside the nucleus. Breaks in synteny are often located at transition points between NL interacting and intra-nuclear regions. Data were compared against data from Peric-Hupkes, Meuleman et al. (Molecular Cell, 2010). LaminB1-chromatin interactions were assayed in human ESCs and human HT1080 cells. LaminA-chromatin interactions were assayed in human HT1080 cells. For the all samples there were 2 biological replicates, that were hybridized in a dye-swap design.
2012-10-10 | E-GEOD-22428 | biostudies-arrayexpress
Project description:Genome-wide maps of nuclear lamina interactions in single human cells. (DamID LaminB1, clone-5-8, haploid)
| PRJNA282148 | ENA