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Links from GEO DataSets

Items: 20

1.

Comparsion of Smad1 and Smad5 Dependent Transcript Profiles in Zebrafish

(Submitter supplied) The BMP signaling pathway regulates multiple steps of hematopoiesis, mediated through receptor-regulated Smads, including Smad1 and Smad5. Here we use loss-of-function approaches in zebrafish to compare the roles of Smad1 and Smad5 during embryonic hematopoiesis. Microarray experiments revealed that the two proteins regulate redundantly the key initiators of the hemato-vascular program, including scl, lmo2, and gfi1. more...
Organism:
Danio rerio
Type:
Expression profiling by array
Platforms:
GPL5783 GPL5746
9 Samples
Download data
Series
Accession:
GSE8903
ID:
200008903
2.

Gene expression of 4, 5, and 6 days differentiated Flk1+ WT ES cells, and of 6 days differentiated Flk1+ Runx1-/- and Tal-1-/- ES cells

(Submitter supplied) In order to identify genes that are activated in differentiating WT ESCs, but are missing in Tal-1-/- and Runx1-/- ESCs, and which might be involved in the generation of definitive hematopoietic progenitors and their specification thereafter, we performed microarray analyses on purified Flk-1+ cells, differentiated from these ESCs for 4, 5, and 6 days “in vitro”.
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL1261
15 Samples
Download data: CEL, CHP
Series
Accession:
GSE46970
ID:
200046970
3.

Mouse embryonic stem cells deficient for Smad1 and Smad5 or for Bmp activated subpopulations.

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing; Methylation profiling by high throughput sequencing
Platform:
GPL17021
24 Samples
Download data
Series
Accession:
GSE71556
ID:
200071556
4.

DNA methylation analysis for mouse embryonic stem cells deficient for Smad1 and Smad5 or for Bmp activated subpopulations.

(Submitter supplied) In this study we determine the profile of DNA methylation by RRBseq of mESC in the absence of Smad1 and Smad5 and in subpopulation of mESC with different levels of BMP-SMAD activation. We observed a general loss of DNA methylation associated with low or absent BMP-SMAD signalling in mESCs.
Organism:
Mus musculus
Type:
Methylation profiling by high throughput sequencing
Platform:
GPL17021
12 Samples
Download data: BEDGRAPH
Series
Accession:
GSE71555
ID:
200071555
5.

Expression profiling for mouse embryonic stem cells deficient for Smad1 and Smad5 or for Bmp activated subpopulations.

(Submitter supplied) In this study we determine the transcriptional profile by RNAseq of mESC in the absence of Smad1 and Smad5 and in subpopulation of mESC with different levels of BMP-SMAD activation.
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL17021
12 Samples
Download data: TXT
Series
Accession:
GSE71554
ID:
200071554
6.

Effect of endoglin loss on embryoid bodies

(Submitter supplied) Analysis of embryonic sten cell-derived embryoid bodies following endoglin knock out. Loss of endoglin leads to profound reduction of key hematopoietic regulators including SCL, LMO2, Gata2, and TGF-β signaling molecule ALK-1. Results provide insight into molecular mechanisms underlying hemangioblast and primitive hematopoietic development.
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL6105
6 Samples
Download data: TXT
Series
Accession:
GSE29300
ID:
200029300
7.

BMP signaling in mouse embryonic stem cells (ESCs) in the naïve and primed pluripotent states

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL11002
11 Samples
Download data: BED, BW
Series
Accession:
GSE70581
ID:
200070581
8.

BMP signaling in mouse embryonic stem cells (ESCs) in the naïve and primed pluripotent states [ChIP-Seq]

(Submitter supplied) Carrying out both RNA-seq and Smad1/5 genome-wide chromatin immunoprecipitation and sequencing (ChIP-seq) analyses of mESCs in the naïve or primed states, we revisit the roles of BMP signaling in mESCs.
Organism:
Mus musculus
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL11002
6 Samples
Download data: BED, BW
Series
Accession:
GSE70579
ID:
200070579
9.

BMP signaling in mouse embryonic stem cells (ESCs) in the naïve and primed pluripotent states [RNA-Seq]

(Submitter supplied) Carrying out both RNA-seq and Smad1/5 genome-wide chromatin immunoprecipitation and sequencing (ChIP-seq) analyses of mESCs in the naïve or primed states, we revisit the roles of BMP signaling in mESCs.
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL11002
5 Samples
Download data: BW, TXT
Series
Accession:
GSE70578
ID:
200070578
10.

Effect of BMP4 and noggin on gene expression in murine R1 ES cells

(Submitter supplied) To confirm that the SMAD1/5- and SMAD4-associated genes are direct transcriptional regulators in mESCs in response to BMP, we treated undifferentiated R1 ES cells with BMP4 or with the BMP4 antagonist noggin, which can inhibit BMP signaling effectively for 4 h.
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL1261
3 Samples
Download data: CEL
Series
Accession:
GSE20527
ID:
200020527
11.

SMAD1/5, SMAD2 and SMAD4 binding/occupancy profiling in murine embryonic stem cells R1

(Submitter supplied) To determine the binding targets of SMAD1/5, SMAD2 and SMAD4 in mouse ESCs, ChIP combined with DNA microarray was carried out according to Agilent Mammalian ChIP-on-chip protocol. Briefly, immunoprecipitated (IP) DNA was blunted with T4 polymerase and ligated to linkers with T4 DNA ligase. For reference, 200 ng of input DNA was used. Ligated DNA was amplified with two rounds of PCR cycles. Two ug of each amplified sample were labeled with Cy5 for IP DNA, and Cy3 for input DNA using CGH labeling kit (Invitrogen). more...
Organism:
Mus musculus
Type:
Genome binding/occupancy profiling by array
Platforms:
GPL4129 GPL4128
6 Samples
Download data: TXT
Series
Accession:
GSE18629
ID:
200018629
12.

RNA-sequencing of FACS-sorted Prominin1+ radial glial cells of E12.5 SmadNes mutant embryos (Smad1wt/fl;Smad5wt/fl;Nestin:Cre+/0) and control littermates (Smad1wt/fl;Smad5wt/fl;Nestin:Cre0/0)

(Submitter supplied) We report the transcriptomes of mouse E12.5 cortical radial glial cells and the changes caused by inhibition of the canonical BMP signalling effectors SMAD1/5, whose expression levels are reduced by 50% in the SmadNes mutants.
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL17021
6 Samples
Download data: TXT, XLSX
Series
Accession:
GSE153751
ID:
200153751
13.

Smad1/5/8 mutant granulosa cell tumor gene expression

(Submitter supplied) The objective of this study was to understand the gene expression changes during granulosa cell tumor development in Smad1/5/8 mutant ovaries. Keywords: Microarray analysis, gene expression
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL1261
6 Samples
Download data: CEL, CHP
Series
Accession:
GSE8156
ID:
200008156
14.

Identification of direct transcriptional targets of BMP signaling during zebrafish dorsal-ventral axial patterning

(Submitter supplied) To determine the mechanism of BMP morphogen interpretation in the zebrafish gastrula, we identified genes that are dependent on BMP signaling for their expression, as well as the genes directly regulated by BMP signaling using RNA-sequencing.
Organism:
Danio rerio
Type:
Expression profiling by high throughput sequencing
Platform:
GPL21741
14 Samples
Download data: XLSX
Series
Accession:
GSE163047
ID:
200163047
15.

Gene expression profiling of Smad1/5 cKO and Acvr2a cKO mice

(Submitter supplied) We generated mice with single or double conditional inactivation of SMAD1 and SMAD5 using progesterone receptor (PR) cre (Smad1flox/flox;Smad5flox/flox;Pgr-cre+/-, or “Smad1/5 cKO”). Female mice with single SMAD1 or SMAD5 deletion were subfertile, whereas Smad1/5 cKO were infertile and had no visible implantation sites at 4.5 days post-coitum (dpc), indicating functional redundancy of SMAD1 and SMAD5. more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL24247
11 Samples
Download data: TXT
Series
Accession:
GSE152675
ID:
200152675
16.

Expression data from ETO2/LMO2 knockdown G1E-ER-GATA-1 cells

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL4134
4 Samples
Download data: TXT
Series
Accession:
GSE24359
ID:
200024359
17.

Expression data from LMO2 knockdown G1E-ER-GATA-1 cells

(Submitter supplied) We used microarrays to examine what genes could be regurated by LMO2 in erythroid cells.
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL4134
2 Samples
Download data: TXT
Series
Accession:
GSE24336
ID:
200024336
18.

Expression data from ETO2 knockdown G1E-ER-GATA-1 cells

(Submitter supplied) We used microarrays to examine what genes could be regulated by ETO2 in erythroid cells.
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL4134
2 Samples
Download data: TXT
Series
Accession:
GSE24333
ID:
200024333
19.

Liver expression of Bmp6, Smad7, Id1 and Atoh8 is regulated by iron stores

(Submitter supplied) Background & Aims: Although hepcidin expression was shown to be induced by the BMP signaling pathway, it is not yet known how iron regulates hepcidin and which of the BMP molecules is the endogenous regulator of iron homeostasis in vivo. We therefore assessed liver transcription profiles of mice fed an iron-deficient or an iron-enriched diet and looked for genes that were regulated similarly to hepcidin in that context. more...
Organism:
Mus musculus
Type:
Expression profiling by array
Dataset:
GDS3373
Platform:
GPL4134
30 Samples
Download data: TXT
Series
Accession:
GSE10421
ID:
200010421
20.
Full record GDS3373

Iron enriched and deficient diets effect on the liver

Analysis of livers of C57BL/6 and DBA/2 animals fed an iron enriched or deficient diet. Iron induces the production of hepcidin, a hepatic peptide hormone that regulates systemic iron homeostasis. Results provide insight into the molecular mechanisms regulating hepcidin expression.
Organism:
Mus musculus
Type:
Expression profiling by array, transformed count, 3 protocol, 2 strain sets
Platform:
GPL4134
Series:
GSE10421
30 Samples
Download data: TXT
DataSet
Accession:
GDS3373
ID:
3373
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