Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

41 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Sall1CreER E13.5 110228

ABSTRACT: We have employed whole genome microarray expression profiling to identify genes regulated by Sall1 in the kidney. Kidneys at E13.5 were obtained from inducible Sall1 deletion 24 hrs after tamoxifen treatment (2 set).

ORGANISM(S): Mus musculus

SUBMITTER: Ryuichi Nishinakamura

PROVIDER: E-GEOD-45841 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

Six2CrefSall1 E14.5 WTvsKO, Sall1CreERfSall1 E14.5 WTvsKO 100120

Project description:We have employed whole genome microarray expression profiling to identify genes regulated by Sall1 in the kidney. Kidneys at E14.5 were obtained from nephron progenitor-specific Sall1 deletion ( 2 sets) and inducible Sall1 deletion 48 hrs after tamoxifen treatment (1 set).

2014-03-24 | E-GEOD-45844 | biostudies-arrayexpress

Six2GFPE15.5 110309

Project description:We have employed whole genome microarray expression profiling to identify genes regulated by Sall1 in the kidney. Six2GFP-positive nephron progenitors and Six2GFP-negative cells were collected from the embryonic kidneys at E15.5 (2 set) , and their expression profiles were compared.

2014-03-24 | E-GEOD-45664 | biostudies-arrayexpress

Sall1 co-operated with Six2 to actively maintain nephron progenitors in the embryonic kidney

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2014-03-24 | E-GEOD-45845 | biostudies-arrayexpress

Overexpression of each of the 6 interfering TFs and 5 non-interfering TFs

Project description:To clarify that the interfering effect in iPS induction was not because of extraordinary gene expression which was caused by overexpression of infected genes, transcriptional profile of the cells infected six genes were analysed using microarray analysis. As result, overexpression of each of the 6 interfering TFs in NSEB5-2C did not compromise transcriptional profile compared with the five non-interfering TFs. The cells were infected by retroviruses (carrying each ORF in pMXs-IRESNeo) at the titre in which around 95% of cells express the transgene. After 24hr of the infection, G418 was added to eliminate non-expressing cells. Each cells were harvested at 72hr after the infection.

2011-06-07 | E-GEOD-29728 | biostudies-arrayexpress

Unsupervised hierarchical clustering of iHPCs induced by 9 or 10 TFs

Project description:To clarify the gene expression profile of iHep, microarray analysis was performed using iHeps induced by 10 TFs (Foxg1, Lcor, Hnf3b, Hnf4a, Foxo6, Cdx2, Tcf1, Foxa3 ,Tcf2, Onecut1) and 9 TFs (Onecut1 was omitted from 10 TFs). Unsupervised hierarchical clustering indicated that iHep is expressing a global transcriptional profile more similar to that of HPCs rather than that of NPCs, and suggested that TFs present in the pool acted as inducing TFs. HPC (HB1 and HNG2) were established from fetal liver (E13.5) of C57BL6J and STOCK Tg(Nanog-GFP, Puro)1 Yam, respectively. iHeps were induced from NPC (NSBAg2, established from an ES cell line BAg73C2 carrying beta-geo knock-in allele in Afp) using retroviral vectors (pMXs without drug-selection markers) of 9 or 10 transcription factors. Three weeks after the infection, G418 was added and cultured for 1 week before the harvest. NSBAg2 and NSEB5-2C were used for the data of NPC. GSM396240 and GSM336010 were used for the data of ESC.

2011-06-07 | E-GEOD-29730 | biostudies-arrayexpress

Selection of NPC specific Transcription factors

Project description:To construct a candidate pool of NPC specific transcription factor (TF), we selected the genes expressed at relatively high levels in NPCs by comparing them to mixed RNA derived from multiple organs, eliminating housekeeping genes. As result, 160 putative NPC specific TFs were selected. We used three independent NPC lines (NSEB5-2C, NS195R, NS21) established from different ES cell lines (EB5, 195R, 21, respectively). Genes exhibiting relatively higher expression (1.5 fold) in NSEB5-2C and NS195R (or, NSEB5-2C and NS21) were selected by comparing with Mixture (consisting of equal microgram of RNAs from heart, kidney, thymus, spleen, liver, lung, d11 embryo). Gene Ontology (GO) terms ‘DNA binding’ and ‘transcription activity’ were used to select TFs.

2011-06-07 | E-GEOD-29729 | biostudies-arrayexpress

Unsupervised hierarchical clustering of iNPCs induced by 6 or 5 TFs

Project description:To clarify the gene expression profile of iNPC, microarray analysis was performed using iNPCs induced by 6 TFs (Pax6, Hmga2, Etv6, Gatad2b, Nfxl1, and Esx1) and 5 TFs (Esx1 was omitted from 6 TFs). Unsupervised hierarchical clustering indicated that iNPC is expressing a global transcriptional profile more similar to that of NPCs rather than that of MEFs, and suggested that the TFs present in the pool acted as inducing TFs. iNPCs were induced from MEF using 6 or 5 transcription factors. iNPCs were induced from MEF (MEFSH, derived from mice carrying IRES-Hygro in Sox allele) using retroviral vectors (pMXs-IRESNeo) of 6 or 5 transcription factors. Four weeks after the infection, Hygromycin was added and cultured for 1 week before the harvest. NSBAg2 and NSEB5-2C were used for the data of NPC. GSM396240 and GSM336010 were used for the data of ESC.GSM651349 and GSM336011 were used for the data of MEF.

2011-06-07 | E-GEOD-29724 | biostudies-arrayexpress

The overexpression of Pax6 affects mesenchymal to epithelial transition (MET) pathway during iPS induction in NPC.

Project description:We performed a microarray analysis to compare N31EGFP and N31Pax6 transcriptional profiles 24 h after iPS induction. Among 603 genes whose levels changed greater than two-fold (295 lower, 308 higher), we noticed a 10-fold decrease in the Cdh1 signal in N31Pax6, which was confirmed by reverse transcription-mediated quantitative polymerase chain reaction (RT-QPCR). iPS induction is known to require activation of the mesenchymal to epithelial transition (MET) pathway, which involves Cdh1 upregulation. In fact, Twist1 expression, repression of which is required for MET pathway activation was higher in N31Pax6. Dox-inducible iPS-NPC, N31, was established from the primary iPSC induced from NSEB5-2C by introducing dox-inducible Oct3/4, Sox2, Klf4 and c-Myc. EGFP or Pax6 were overexpressed in N31 by transfecting CAG-EGFP-IP or CAG-Pax6-IP by Tol2 transposon. Gene expression was measured at 24 hours after exposure to doxycycline, when apparent morphological change was observed only in N31EGFP.

2011-06-07 | E-GEOD-29726 | biostudies-arrayexpress

Systematic identification of transcription factors capable of inducing cell-type-specific transcriptional profiles

Project description:This SuperSeries is composed of the following subset Series: GSE29724: Unsupervised hierarchical clustering of iNPCs induced by 6 or 5 TFs GSE29726: The overexpression of Pax6 affects mesenchymal to epithelial transition (MET) pathway during iPS induction in NPC. GSE29728: Overexpression of each of the 6 interfering TFs and 5 non-interfering TFs GSE29729: Selection of NPC specific Transcription factors GSE29730: Unsupervised hierarchical clustering of iHPCs induced by 9 or 10 TFs Refer to individual Series

2011-06-10 | E-GEOD-29875 | biostudies-arrayexpress

Sall1CreER E13.5 110228

Project description:We have employed whole genome microarray expression profiling to identify genes regulated by Sall1 in the kidney.

2014-03-24 | GSE45841 | GEO