GEO DataSets

(Submitter supplied) The nuclear transmembrane proteins (NETs) NET29/TMEM120A, NET39/PPAPDC3 and NET47/TM7SF2 are able to reposition chromosomes towards/away from the nuclear envelope when overexpressed or knocked down in HT1080 cells. In this study we wanted to investigate the transcriptome changes after transfection of the full length NETs or a nucleoplasmic soluble fragment that does not localise to the nuclear envelope.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL6884

27 Samples

Download data: TXT

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Homo sapiens

Type:

Expression profiling by array; Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL6884 GPL11154

35 Samples

Download data: XLS

(Submitter supplied) Maps of genomic regions in proximity to the nuclear lamina were determined in untreated HT1080 fibroblasts and HT1080 stable cell lines expressing NET29/TMEM120A, NET39/PPAPDC3 or NET47/TM7SF2 as GFP fusions

Organism:

Homo sapiens

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL11154

8 Samples

Download data: BED, BW

(Submitter supplied) During muscle differentiation, myogenesis sepcific genes are differentially regulated, including Lamins that function at least in maintenance of nuclear architecture and regulation of gene expression. We used microarrays to detail the global changes of gene expression in lamins and nuclear envelope assoicated proteins during myogenesis. Keywords: comparative, myogenesis

Organism:

Mus musculus

Type:

Expression profiling by array

Dataset:

GDS2412

Platform:

GPL1261

6 Samples

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Analysis of C2C12 skeletal myoblasts induced to differentiate into myotubes in vitro. Results provide insight into the role of nuclear envelope transmembrane proteins in myogenesis.

Organism:

Mus musculus

Type:

Expression profiling by array, count, 2 development stage sets

Platform:

GPL1261

Series:

GSE4694

6 Samples

Download data

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Mus musculus

Type:

Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by array

Platforms:

GPL6887 GPL13112

25 Samples

Download data: XLS

(Submitter supplied) The nuclear envelope transmembrane proteins (NETs) NET39/PPAPDC3, TMEM38A, TMEM214 and WFS1 are expressed or localise preferentially to the nuclear envelope in muscle cells. We knocked these proteins down using specific shRNAs and studied their effect in the diffentiation of the mouse C2C12 myoblast cell line.

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL6887

21 Samples

Download data: TXT

(Submitter supplied) Maps of genomic regions in proximity to the nuclear lamina were determined in undifferentiated C2C12 myoblasts (MBs) and 6 day differentiated C2C12 myotubes (MTs) using DamID with a Dam-Lamin B1-encoding lentivirus.

Organism:

Mus musculus

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL13112

4 Samples

Download data: BED, BW

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Homo sapiens

Type:

Expression profiling by array; Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL11154 GPL10558

16 Samples

Download data: XLS

(Submitter supplied) Activation of T-cells induces dramatic changes in genome organisation and gene transcription. Here we identify changes in chromatin association with the periphery by DamID.

Organism:

Homo sapiens

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL11154

4 Samples

Download data: BED, BW

(Submitter supplied) Activation of T-cells induces dramatic changes in genome organisation and gene transcription. Here we identify changes in transcriptional profiles at 8h, 24h and 48 post activation

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL10558

12 Samples

Download data: TXT

(Submitter supplied) The nuclear envelope protein Tm7sf2/NET47, a paralog of Lbr preferentially expressed in liver, was knocked out in mouse (C57/B6 background). The transcriptome of livers from WT and KO mice were compared by microarray.

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL1261

4 Samples

Download data: CEL, XLS

(Submitter supplied) Maps of genomic regions in proximity to the nuclear lamina were determined in primary hepatocytes from wild type and Tm7sf2/NET47 KO mouse, C57BL/6 strain, using DamID with a Dam-Lamin B1-encoding lentivirus.

Organism:

Mus musculus

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL13112

4 Samples

Download data: BED, BW, XLSX

(Submitter supplied) Background: The spatial organisation of the genome in the nucleus has a role in the regulation of gene expression. In mammals, chromosomal regions with low gene-density are located close to the nuclear periphery. Correlations have also been made between the transcriptional state of some genes and their location near the nuclear periphery. However, a crucial issue is whether this level of nuclear organisation directly affects gene function, rather than merely reflecting it. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL2827

13 Samples

Download data: TXT

(Submitter supplied) Data set to accompany : Anatomic demarcation by positional variation in fibroblast gene expression programs. PLoS Genet. 2006 Jul;2(7):e119. PMID: 16895450 Fibroblasts are ubiquitous mesenchymal cells with many vital functions during development, tissue repair, and disease. Fibroblasts from different anatomic sites have distinct and characteristic gene expression patterns, but the principles that govern their molecular specialization are poorly understood. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platforms:

GPL4214 GPL4213

48 Samples

Download data

(Submitter supplied) The three-dimensional (3D) folding of the chromosomal fibre in the human interphase nucleus is an important, but poorly understood aspect of gene regulation. Especially basic principles of 3D chromatin and chromosome organisation are still elusive. In this paper, we quantitatively analyse the 3D structure of large parts of chromosomes 1 and 11 in the G1 nucleus of human cells and relate it to the human transcriptome map (HTM). more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

5 Samples

Download data: CEL