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Links from GEO DataSets

Items: 20

1.
Full record GDS5180

B-cell leukemia/lymphoma 11B overexpression effect on brain striatal cells in vitro

Analysis of cultured brain striatal cells overexpressing the B-cell leukemia/lymphoma 11B (Bcl11b) gene. Bcl11b encodes a zinc finger protein. Results provide insight into the function of Bcl11b in striatal cells.
Organism:
Mus musculus
Type:
Expression profiling by array, transformed count, 2 protocol sets
Platform:
GPL6885
Series:
GSE31096
8 Samples
Download data
2.

Genome-wide identification of Bcl11b gene targets

(Submitter supplied) B-cell leukemia/lymphoma 11B (Bcl11b) is a transcription factor showing predominant expression in the striatum. To date, there are no known gene targets of Bcl11b in the nervous system. Here, we define targets for Bcl11b in striatal cells by performing genome-wide expression profiling. Transcriptome-wide analysis revealed that 694 genes were significantly altered in striatal cells over-expressing Bcl11b, including genes showing striatal-enriched expression similar to Bcl11b. more...
Organism:
Mus musculus
Type:
Expression profiling by array
Dataset:
GDS5180
Platform:
GPL6885
8 Samples
Download data: TXT
Series
Accession:
GSE31096
ID:
200031096
3.

Genome-wide analysis of p53 binding by ChIP-seq

(Submitter supplied) We used ChIP-seq to identify the genomic locations bound by p53 in mouse kidney
Organism:
Mus musculus
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL9250
2 Samples
Download data: BED
Series
Accession:
GSE49916
ID:
200049916
4.

Gene expression of p53 null vs. p53 wild-type mouse kidneys at embryonic day 15.5

(Submitter supplied) Gene expression microarray analysis was performed on E15.5 p53+/+ and p53-/- litter-matched kidneys. We have previously shown that p53 is expressed in both UB and MM lineages in the kidney, and that p53-null embryos on C57B6L background exhibit a range of congenital abnormalities of the kidney and urinary tract such as duplicated ureters, reduced nephron numbers, and compromised nephron progenitor renewal and differentiation. more...
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL4134
8 Samples
Download data: TXT
Series
Accession:
GSE49878
ID:
200049878
5.

Genome-wide Profiling of Progesterone Receptor and GATA2 Binding in the Mouse Uterus

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Mus musculus
Type:
Expression profiling by array; Genome binding/occupancy profiling by high throughput sequencing
Platforms:
GPL1261 GPL9250
10 Samples
Download data: CEL, XLS
Series
Accession:
GSE40663
ID:
200040663
6.

Genome-wide Profiling of Progesterone Receptor and GATA2 Binding in the Mouse Uterus [ChIP-Seq]

(Submitter supplied) Progesterone (P4) signaling through its nuclear transcription factor, the progesterone receptor (PR), is essential for normal uterine function. Although deregulation of PR mediated signaling is known to underscore uterine dysfunction and a number of endometrial pathologies, the early molecular mechanisms of this deregulation are unclear. To address this issue, we have defined the genome-wide PR and GATA2 cistrome in the murine uterus using chromatin immunoprecipitation followed by massively parallel sequencing (ChIP-seq). more...
Organism:
Mus musculus
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL9250
4 Samples
Download data: XLS
Series
Accession:
GSE34927
ID:
200034927
7.

Genome-wide Profiling of Progesterone Receptor and GATA2 Binding in the Mouse Uterus [Affymetrix]

(Submitter supplied) Progesterone (P4) signaling through its nuclear transcription factor, the progesterone receptor (PR), is essential for normal uterine function. Although deregulation of PR mediated signaling is known to underscore uterine dysfunction and a number of endometrial pathologies, the early molecular mechanisms of this deregulation are unclear. To address this issue, we have defined the genome-wide PR and GATA2 cistrome in the murine uterus using chromatin immunoprecipitation followed by massively parallel sequencing (ChIP-seq). more...
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL1261
6 Samples
Download data: CEL
Series
Accession:
GSE34902
ID:
200034902
8.

High-resolution genome-wide mapping of AHR and ARNT binding sites by ChIP-Seq

(Submitter supplied) The aryl hydrocarbon receptor (AHR) and AHR nuclear translocator (ARNT) activated complex regulates genes in response to the environmental contaminant 2,3,7,8-tetrachlorodibenzo-p-dioxin (TCDD). AHR has also emerged as a potential therapeutic target for the treatment of human diseases and different cancers, including breast cancer. To better understand AHR and ARNT signaling in breast cancer cells, we used chromatin immunoprecipitation linked to high throughput sequencing to identify AHR- and ARNT-binding sites across the genome in TCDD treated MCF-7 cells. more...
Organism:
Homo sapiens
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL11154
4 Samples
Download data: BED
Series
Accession:
GSE41820
ID:
200041820
9.

MicroRNA expression during Hematopoiesis

(Submitter supplied) Murine ES cells were grown on confluent OP-9 and differentiated along the hematopoitic lineage. To assess the effects of Notch in hematopoiesis, activated Notch was overexpressed from Day 5 to Day 8.
Organism:
Murid gammaherpesvirus 4; Human polyomavirus 1; Homo sapiens; Mus musculus; Human alphaherpesvirus 1; Human betaherpesvirus 5; Human gammaherpesvirus 4; Human immunodeficiency virus 1; Merkel cell polyomavirus; Human alphaherpesvirus 2; Mus musculus cytomegalovirus 2; Rattus norvegicus; JC polyomavirus; Human gammaherpesvirus 8; Macaca mulatta polyomavirus 1
Type:
Non-coding RNA profiling by array
Platform:
GPL11432
9 Samples
Download data: GPR
Series
Accession:
GSE28338
ID:
200028338
10.

Temporal ChIP-on-Chip of RNA-Polymerase-II to detect novel gene activation events during photoreceptor maturation

(Submitter supplied) RNA Polymerase-II active regions were mapped comparing mouse neural retina tissue at age P25 and P2 to find novel gene activation predictions during maturation of photoreceptors. Over 800 predictions of increased activation were novel compared to previous mRNA expression array studies.
Organism:
Mus musculus
Type:
Genome binding/occupancy profiling by genome tiling array
Platform:
GPL5811
3 Samples
Download data: BED, CEL
Series
Accession:
GSE19999
ID:
200019999
11.

Forkhead box protein p1 is a transcriptional repressor of immune signaling in the CNS

(Submitter supplied) Forkhead box protein P1 (Foxp1), a transcription factor showing highly enriched expression in the striatum, has been implicated in CNS development, but its role in the mature brain is unknown. In order to ascertain functional roles for Foxp1 in the CNS, we have identified gene targets for Foxp1 in vitro using gene expression microarrays and chromatin immunoprecipitation followed by high-throughput sequencing (ChIP-seq) assays. more...
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL6885
6 Samples
Download data: TXT
Series
Accession:
GSE31560
ID:
200031560
12.

Deep sequencing of MYC DNA-binding sites in Burkitt's lymphoma

(Submitter supplied) Background: MYC is a transcription factor encoded by the c-MYC gene (thereafter termed MYC). MYC is key transcription factor involved in many central cellular processes including ribosomal biogenesis. MYC is overexpressed in the majority of human tumours including aggressive B-cell lymphoma especially Burkitt's lymphoma. Although Burkitt's lymphoma is a highlight example for MYC overexpression due to a chromosomal translocation, no global analysis of MYC binding sites by chromatin immunoprecipitation (ChIP) followed by global next generation sequencing (ChIP-Seq) has been conducted so far in Burkitt's lymphoma. more...
Organism:
Homo sapiens
Type:
Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by array
Platforms:
GPL96 GPL9052
22 Samples
Download data: BED, CEL, TXT
13.

Site-Specific Association with Host and Viral Chromatin by KSHV LANA and its Reversal during Lytic Reactivation

(Submitter supplied) Latency-associated nuclear antigen (LANA), a multifunctional protein expressed by the Kaposi sarcoma-associated herpesvirus (KSHV) in latently-infected cells, is required for stable maintenance of the viral episome. This is mediated by two interactions: LANA binds to specific sequences (LBS1 and 2) on viral DNA, and also engages host histones, tethering the viral genome to host chromosomes in mitosis. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing
Platforms:
GPL9115 GPL16791
33 Samples
Download data: BED, GTF, TXT
Series
Accession:
GSE56144
ID:
200056144
14.

Identification of Transcription Factor PHA-4::GFP Binding Regions in L2

(Submitter supplied) modENCODE_submission_3158 This submission comes from a modENCODE project of Michael Snyder. For full list of modENCODE projects, see http://www.genome.gov/26524648 Project Goal: We are identifying the DNA binding sites for 300 transcription factors in C. elegans. Each transcription factor gene is tagged with the same GFP fusion protein, permitting validation of the gene's correct spatio-temporal expression pattern in transgenic animals. more...
Organism:
Caenorhabditis elegans
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL9309
5 Samples
Download data: BEDGRAPH, GFF3
Series
Accession:
GSE26153
ID:
200026153
15.

Identification of Transcription Factor PES-1::GFP Binding Regions in L4

(Submitter supplied) modENCODE_submission_3157 This submission comes from a modENCODE project of Michael Snyder. For full list of modENCODE projects, see http://www.genome.gov/26524648 Project Goal: We are identifying the DNA binding sites for 300 transcription factors in C. elegans. Each transcription factor gene is tagged with the same GFP fusion protein, permitting validation of the gene's correct spatio-temporal expression pattern in transgenic animals. more...
Organism:
Caenorhabditis elegans
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL9309
9 Samples
Download data: BEDGRAPH, GFF3
Series
Accession:
GSE26152
ID:
200026152
16.

Identification of Transcription Factor PQM-1::GFP Binding Regions in L3

(Submitter supplied) modENCODE_submission_2623 This submission comes from a modENCODE project of Michael Snyder. For full list of modENCODE projects, see http://www.genome.gov/26524648 Project Goal: We are identifying the DNA binding sites for 300 transcription factors in C. elegans. Each transcription factor gene is tagged with the same GFP fusion protein, permitting validation of the gene's correct spatio-temporal expression pattern in transgenic animals. more...
Organism:
Caenorhabditis elegans
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL9309
4 Samples
Download data: BEDGRAPH, GFF3
Series
Accession:
GSE25811
ID:
200025811
17.

Identification of Transcription Factor SKN-1::GFP Binding Regions in L1

(Submitter supplied) modENCODE_submission_2622 This submission comes from a modENCODE project of Michael Snyder. For full list of modENCODE projects, see http://www.genome.gov/26524648 Project Goal: We are identifying the DNA binding sites for 300 transcription factors in C. elegans. Each transcription factor gene is tagged with the same GFP fusion protein, permitting validation of the gene's correct spatio-temporal expression pattern in transgenic animals. more...
Organism:
Caenorhabditis elegans
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL9309
4 Samples
Download data: BEDGRAPH, GFF3
Series
Accession:
GSE25810
ID:
200025810
18.

Identification of Transcription Factor EGL-27::GFP Binding Regions in L1

(Submitter supplied) modENCODE_submission_2621 This submission comes from a modENCODE project of Michael Snyder. For full list of modENCODE projects, see http://www.genome.gov/26524648 Project Goal: We are identifying the DNA binding sites for 300 transcription factors in C. elegans. Each transcription factor gene is tagged with the same GFP fusion protein, permitting validation of the gene's correct spatio-temporal expression pattern in transgenic animals. more...
Organism:
Caenorhabditis elegans
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL9309
4 Samples
Download data: BEDGRAPH, GFF3
Series
Accession:
GSE25809
ID:
200025809
19.

Identification of Transcription Factor CEH-30::GFP Binding Regions in Late Embyros

(Submitter supplied) modENCODE_submission_2620 This submission comes from a modENCODE project of Michael Snyder. For full list of modENCODE projects, see http://www.genome.gov/26524648 Project Goal: We are identifying the DNA binding sites for 300 transcription factors in C. elegans. Each transcription factor gene is tagged with the same GFP fusion protein, permitting validation of the gene's correct spatio-temporal expression pattern in transgenic animals. more...
Organism:
Caenorhabditis elegans
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL9309
4 Samples
Download data: BEDGRAPH, GFF3
Series
Accession:
GSE25808
ID:
200025808
20.

Identification of Transcription Factor ELT-3::GFP Binding Regions in L1

(Submitter supplied) modENCODE_submission_2614 This submission comes from a modENCODE project of Michael Snyder. For full list of modENCODE projects, see http://www.genome.gov/26524648 Project Goal: We are identifying the DNA binding sites for 300 transcription factors in C. elegans. Each transcription factor gene is tagged with the same GFP fusion protein, permitting validation of the gene's correct spatio-temporal expression pattern in transgenic animals. more...
Organism:
Caenorhabditis elegans
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL9309
4 Samples
Download data: BEDGRAPH, GFF3
Series
Accession:
GSE25805
ID:
200025805
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