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accession-icon SRP059850
Using single-cell RNA-Seq for unbiased analysis of developmental hierarchies (single cell RNA Seq of GMP)
  • organism-icon Mus musculus
  • sample-icon 123 Downloadable Samples
  • Technology Badge IconIlluminaHiSeq2500

Description

Single cell RNA seq and bioinformatic analysis is used to characterize myeloid differentiation to uncover novel transcriptional networks and key drivers of hematoipoietic development Overall design: Single cell RNA seq of different hematopoietic populations integrated with Chip seq involving multiple markers

Publication Title

Single-cell analysis of mixed-lineage states leading to a binary cell fate choice.

Sample Metadata Fields

No sample metadata fields

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accession-icon SRP059903
Using single-cell RNA-Seq for unbiased analysis of developmental hierarchies (single cell RNA Seq from CMP)
  • organism-icon Mus musculus
  • sample-icon 85 Downloadable Samples
  • Technology Badge IconIlluminaHiSeq2500

Description

Single cell RNA seq and bioinformatic analysis is used to characterize myeloid differentiation to uncover novel transcriptional networks and key drivers of hematoipoietic development Overall design: Single cell RNA seq of different hematopoietic populations integrated with Chip seq involving multiple markers

Publication Title

Single-cell analysis of mixed-lineage states leading to a binary cell fate choice.

Sample Metadata Fields

No sample metadata fields

View Samples
accession-icon SRP059844
Using single-cell RNA-Seq for unbiased analysis of developmental hierarchies (single cell RNA Seq of bone marrow lineage-negative Sca1+ CD117+ cells)
  • organism-icon Mus musculus
  • sample-icon 88 Downloadable Samples
  • Technology Badge IconIllumina HiSeq 2500

Description

Single cell RNA seq and bioinformatic analysis is used to characterize myeloid differentiation to uncover novel transcriptional networks and key drivers of hematoipoietic development Overall design: Single cell RNA seq of different hematopoietic populations integrated with Chip seq involving multiple markers

Publication Title

Single-cell analysis of mixed-lineage states leading to a binary cell fate choice.

Sample Metadata Fields

No sample metadata fields

View Samples
accession-icon SRP059848
Using single-cell RNA-Seq for unbiased analysis of developmental hierarchies (single cell RNA Seq of Gfi1-/- GMP)
  • organism-icon Mus musculus
  • sample-icon 71 Downloadable Samples
  • Technology Badge IconIlluminaHiSeq2500

Description

Single cell RNA seq and bioinformatic analysis is used to characterize myeloid differentiation to uncover novel transcriptional networks and key drivers of hematoipoietic development Overall design: Single cell RNA seq of different hematopoietic populations integrated with Chip seq involving multiple markers

Publication Title

Single-cell analysis of mixed-lineage states leading to a binary cell fate choice.

Sample Metadata Fields

No sample metadata fields

View Samples
accession-icon SRP059873
Using single-cell RNA-Seq for unbiased analysis of developmental hierarchies (single cell RNA Seq of Irf8 KO GMP)
  • organism-icon Mus musculus
  • sample-icon 63 Downloadable Samples
  • Technology Badge IconIllumina HiSeq 2500

Description

Single cell RNA seq and bioinformatic analysis is used to characterize myeloid differentiation to uncover novel transcriptional networks and key drivers of hematoipoietic development Overall design: Single cell RNA seq of different hematopoietic populations integrated with Chip seq involving multiple markers

Publication Title

Single-cell analysis of mixed-lineage states leading to a binary cell fate choice.

Sample Metadata Fields

No sample metadata fields

View Samples
accession-icon SRP071150
Using single-cell RNA-Seq for unbiased analysis of developmental hierarchies (single cell RNA Seq of Gfi1-/- Irf8-/- GMP)
  • organism-icon Mus musculus
  • sample-icon 47 Downloadable Samples
  • Technology Badge IconIllumina HiSeq 2500

Description

Single cell RNA seq and bioinformatic analysis is used to characterize myeloid differentiation to uncover novel transcriptional networks and key drivers of hematoipoietic development Overall design: Single cell RNA seq of different hematopoietic populations integrated with Chip seq involving multiple markers

Publication Title

Single-cell analysis of mixed-lineage states leading to a binary cell fate choice.

Sample Metadata Fields

Specimen part, Cell line, Subject

View Samples
accession-icon SRP059847
Using single-cell RNA-Seq for unbiased analysis of developmental hierarchies (single cell RNA Seq of Gfi1-GFP GMP)
  • organism-icon Mus musculus
  • sample-icon 38 Downloadable Samples
  • Technology Badge IconIllumina HiSeq 2500

Description

Single cell RNA seq and bioinformatic analysis is used to characterize myeloid differentiation to uncover novel transcriptional networks and key drivers of hematoipoietic development Overall design: Single cell RNA seq of different hematopoietic populations integrated with Chip seq involving multiple markers

Publication Title

Single-cell analysis of mixed-lineage states leading to a binary cell fate choice.

Sample Metadata Fields

No sample metadata fields

View Samples
accession-icon SRP059904
Using single-cell RNA-Seq for unbiased analysis of developmental hierarchies (single cell RNA Seq of Irf8-GFP GMP)
  • organism-icon Mus musculus
  • sample-icon 37 Downloadable Samples
  • Technology Badge IconIllumina HiSeq 2500

Description

Single cell RNA seq and bioinformatic analysis is used to characterize myeloid differentiation to uncover novel transcriptional networks and key drivers of hematoipoietic development Overall design: Single cell RNA seq of different hematopoietic populations integrated with Chip seq involving multiple markers

Publication Title

Single-cell analysis of mixed-lineage states leading to a binary cell fate choice.

Sample Metadata Fields

No sample metadata fields

View Samples
accession-icon SRP059902
Using single-cell RNA-Seq for unbiased analysis of developmental hierarchies (Bulk RNA-Seq)
  • organism-icon Mus musculus
  • sample-icon 15 Downloadable Samples
  • Technology Badge IconIllumina HiSeq 2500

Description

Single cell RNA seq and bioinformatic analysis is used to characterize myeloid differentiation to uncover novel transcriptional networks and key drivers of hematopoietic development Overall design: Single-cell RNA Seq of 4 different hematopoietic populations, integrated with ChIP Seq involving 4 different markers

Publication Title

Single-cell analysis of mixed-lineage states leading to a binary cell fate choice.

Sample Metadata Fields

No sample metadata fields

View Samples
accession-icon SRP068163
Expression profiling of MCF-7 cells with 10nM treatment of TCDD
  • organism-icon Homo sapiens
  • sample-icon 8 Downloadable Samples
  • Technology Badge IconIllumina HiSeq 1500

Description

The aryl hydrocarbon receptor (AHR) is a ligand-activated transcription factor that is regulated by environmental toxicants that function as AHR agonists such as 2,3,7,8 tetrachlorodibenzo-p-dioxin (TCDD). L-Type Amino Acid Transporter 1 (LAT1) is a leucine uptake transporter that is overexpressed in cancer. The regulation of LAT1 by AHR in MCF-7 and MDA-MB-231 breast cancer cells (BCCs) was investigated in this report. Ingenuity pathway analysis (IPA) revealed a significant association between TCDD-regulated genes (TRGs) and molecular transport. Overlapping the TCDD-RNA-Seq dataset in this report with a published TCDD-ChIP-seq dataset identified that LAT1 was a direct TCDD/AHR gene target. Short interfering RNA (siRNA)-directed knockdown of AHR confirmed that TCDD-stimulated increases in LAT1 mRNA and protein required AHR. TCDD-stimulated increases in LAT1 mRNA was also inhibited by the AHR antagonist CH-223191. Upregulation of LAT1 by TCDD coincided with increases in leucine uptake by MCF-7 cells in response to TCDD. Chromatin immunoprecipitation-quantitative PCR (ChIP-qPCR) assays revealed increases in AHR, AHR nuclear translocator (ARNT) and p300 binding and histone H3 acetylation at an AHR binding site in the LAT1 gene in response to TCDD. In MDA-MB-231 cells, which exhibit high levels of endogenous AHR activity, the levels of endogenous LAT1 mRNA and protein were reduced in response to knockdown of AHR with AHR-siRNA. The regulation of LAT1 by AHR stimulated MDA-MB-231 proliferation. Collectively, these findings have provided a deeper mechanistic understanding of extrinsic and intrinsic regulation of LAT1 by AHR. Overall design: Expression profiling of four replicates of MCF-7 cells treated with 10nM TCDD were compared to expression profiles of four control replicates of MCF-7 cells treated with DMSO by RNA-Seq

Publication Title

Aryl hydrocarbon receptor (AHR) regulation of L-Type Amino Acid Transporter 1 (LAT-1) expression in MCF-7 and MDA-MB-231 breast cancer cells.

Sample Metadata Fields

Treatment, Subject

View Samples