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Transcriptome analysis of human Natural Killer (NK) cells overexpressing the transcription factor RUNX2-I isoform.

ABSTRACT: Transcriptome analysis of human Natural Killer (NK) cells overexpressing the transcription factor RUNX2-I isoform.

PROVIDER: PRJNA723308 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR14286785.fastq.gz	Fastqsanger.gz
	SRR14286786.fastq.gz	Fastqsanger.gz
	SRR14286787.fastq.gz	Fastqsanger.gz
	SRR14286788.fastq.gz	Fastqsanger.gz
	SRR14286789.fastq.gz	Fastqsanger.gz

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Transcriptome analysis of human Natural Killer (NK) cells overexpressing the transcription factor RUNX2-I isoform.

Project description:Research has already gained much insight into the roles of various members of the RUNX family of transcription factors in the development of human T- and B-cells, however the importance in human NK cell development remains unclear. In this study we discovered that NK cells predominantly express the shorter of the two principal isoforms of RUNX2, also referred to as RUNX2-I. Therefore, we overexpressed the RUNX2-I isoform in human umbilical cord blood-derived hematopoietic progenitor cells (HPC) and cultured them in vitro in an NK cell differentiation model. On day 14 of culture (CD56+CD94+) NK cells from RUNX2-I overexpression and control cultures were sorted, after which mRNA was isolated and transcriptome analysis was performed by RNA sequencing. Evaluation of the transcriptome in these NK cells could reveal the molecular mechanisms of the RUNX2-I isoform.

2022-06-03 | GSE172436 | GEO

RUNX2-specific human Natural Killer (NK) cells

Project description:RUNX2-specific human Natural Killer (NK) cells

| PRJNA723303 | ENA

Transcriptome analysis of human Natural Killer (NK) cells expressing a RUNX2-specific shRNA.

Project description:Research has already gained much insight into the roles of various members of the RUNX family of transcription factors in the development of human T- and B-cells, however the importance in human NK cell development remains unclear. Therefore, we transduced a shRNA that specifically binds to all known RUNX2 isoforms in human umbilical cord blood-derived hematopoietic progenitor cells (HPC) and cultured them in vitro in an NK cell differentiation model. On day 21 of culture (CD56+CD94+) NK cells from shRNA and control cultures were sorted, after which mRNA was isolated and transcriptome analysis was performed by RNA sequencing. Evaluation of the transcriptome in these NK cells could reveal the molecular mechanisms of RUNX2.

2022-06-03 | GSE172435 | GEO

Transcriptome analysis of human Natural Killer (NK) cells expressing a RUNX2-specific shRNA.

Project description:Transcriptome analysis of human Natural Killer (NK) cells expressing a RUNX2-specific shRNA.

| PRJNA723309 | ENA

RUNX2-specific ChIP of human peripheral blood NK cells

2022-06-03 | GSE172434 | GEO

Identification and characterization of human Natural Killer (NK) lineage restricted progenitors

Project description:Natural killer (NK) cells represent one of three lymphoid lineages and play a vital role in controlling viral infections and cancer. In contrast to B and T lymphopoiesis where cellular and regulatory pathways have been extensively characterized, the cellular stages of early human NK-cell commitment remain poorly understood Here we described a novel NK-lineage restricted progenitor (NKP) in fetal development, umbilical cord blood and adult bone marrow. We used microarrays to detail the global programme of gene expression genes of this new progenitor. Global gene expression analysis was performed on the NKP, multipotent progenitors LMPP, common lymphoid progenitor candidate and mature NK cells purified from Cord blood CD34+ cells (3-4 replicates, 2 experiments)

2015-09-01 | E-GEOD-60448 | biostudies-arrayexpress

Transcriptome profiling of human Natural Killer (NK) cells overexpressing the transcription factors T-BET or EOMES

Project description:Transcriptome profiling of human Natural Killer (NK) cells overexpressing the transcription factors T-BET or EOMES

| PRJNA700969 | ENA

RUNX2-specific ChIP of human peripheral blood NK cells

Project description:RUNX2-specific ChIP of human peripheral blood NK cells

| PRJNA723310 | ENA

Tissue-Resident Natural Killer (NK) Cells Are Cell Lineages Distinct From Thymic and Conventional Splenic NK Cells (part 1)

Project description:Natural killer (NK) cells belong to the innate immune system where they can control virus infections and developing tumors by cytotoxicity and production of inflammatory cytokines. Most studies of mouse NK cells, however, have focused on conventional NK (cNK) cells found in the spleen. Recently, we described two populations of NK cells within the liver, tissue-resident NK (trNK) cells and those resembling splenic cNK cells. However, the lineage relationship of trNK to cNK cells was unclear because trNK cells display a phenotype associated with immature, developing cNK cells. Moreover, liver trNK cells could be related to thymic NK cells or alternatively, a lineage distinct from both cNK and thymic NK cells. Herein we used detailed transcriptomic, flow cytometric, and functional analysis of mice deficient in several transcription factors to determine that liver trNK cells form a distinct lineage from cNK and thymic NK cells, especially because they do not require NFIL3 (E4BP4), the previously described NK cellspecification factor. Analysis of other tissues indicate the presence of trNK cells in skin and uterus with different transcription factor requirements. Thus, there are at least four distinct lineages of NK cells: cNK, thymic, liver (and skin) trNK, and uterine trNK cells. Liver NK 1.1+CD49+, liver NK 1.1+CD49-, spleen NK 1.1+ CD49- populations of NK cells were sorted with FACS pooling cells from individual mice to end up with ~100k cells for each samples. mRNA was derived from lysates using Invitrogen oligo-dT beads

2014-04-26 | E-GEOD-52043 | biostudies-arrayexpress

Tissue-Resident Natural Killer (NK) Cells Are Cell Lineages Distinct From Thymic and Conventional Splenic NK Cells (part 2)

Project description:Natural killer (NK) cells belong to the innate immune system where they can control virus infections and developing tumors by cytotoxicity and production of inflammatory cytokines. Most studies of mouse NK cells, however, have focused on conventional NK (cNK) cells found in the spleen. Recently, we described two populations of NK cells within the liver, tissue-resident NK (trNK) cells and those resembling splenic cNK cells. However, the lineage relationship of trNK to cNK cells was unclear because trNK cells display a phenotype associated with immature, developing cNK cells. Moreover, liver trNK cells could be related to thymic NK cells or alternatively, a lineage distinct from both cNK and thymic NK cells. Herein we used detailed transcriptomic, flow cytometric, and functional analysis of mice deficient in several transcription factors to determine that liver trNK cells form a distinct lineage from cNK and thymic NK cells, especially because they do not require NFIL3 (E4BP4), the previously described NK cellspecification factor. Analysis of other tissues indicate the presence of trNK cells in skin and uterus with different transcription factor requirements. Thus, there are at least four distinct lineages of NK cells: cNK, thymic, liver (and skin) trNK, and uterine trNK cells. Liver DX5-CD49+, liver DX5+CD49-, spleen DX5+ CD49- populations of NK cells were sorted with FACS pooling cells from individual mice to end up with ~100k cells for each samples. mRNA was derived from lysates using Invitrogen oligo-dT beads

2014-04-26 | E-GEOD-52045 | biostudies-arrayexpress

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