Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

117 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Gene expression in LPS-stimulated human monocyte-derived macrophages (3D-MO)

ABSTRACT: This dataset consists of RNA-seq data from human monocyte-derived macrophages that were subjected to siRNA treatment targeting RAD21 and either left untreated, or stimulated with LPS. In total, it includes 24 samples.

INSTRUMENT(S): NextSeq 550

ORGANISM(S): Homo sapiens

SUBMITTER: Michael Rehli

PROVIDER: E-MTAB-10845 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

Gene expression in human monocyte differentiation (3D-MO)

Project description:This dataset consists of RNA-seq data data from human monocytes, monocyte-derived dendritic cells or monocyte-derived macrophages as well as monocyte-derived cells that were subjected to siRNA treatment targeting CTCF or RAD21. In total, it includes 63 samples.

2022-06-20 | E-MTAB-10844 | biostudies-arrayexpress

RNA-seq of human monocytes and human monocyte-derived cells.

Project description:RNA-seq was performed to determine gene expression changes in monocytes during in vitro differentiation. In addition to control cells, we also studied the impact of siRNA mediated knock-down of key transcription factors on gene expression in monocyte-derived dendritic cells.

2021-02-03 | E-MTAB-9929 | biostudies-arrayexpress

ChIP-sequencing in human monocyte differentiation (3D-MO)

Project description:This dataset consists of ChIP-seq data from human monocytes, monocyte-derived dendritic cells as well as monocyte-derived cells that were subjected to siRNA treatment targeting CTCF or RAD21. ChIP-sequencing was done for H3K27, RAD21 and CTCF. In total, the data set includes 120 samples.

2022-06-24 | E-MTAB-10849 | biostudies-arrayexpress

Chromatin accessibility in human monocytes differentiation (3D-MO)

Project description:This dataset consists of ATAC-seq data from human monocytes, monocyte-derived dendritic cells or monocyte-derived macrophages as well as monocyte-derived cells that were subjected to siRNA treatment targeting CTCF or RAD21. In total, it includes 39 samples.

2022-06-24 | E-MTAB-10846 | biostudies-arrayexpress

ATAC-seq of human monocytes and human monocyte-derived cells.

Project description:ATAC-seq was performed to map changes in chromatin accessibility in monocytes during in vitro differentiation. In addition to control cells, we also studied the impact of siRNA mediated knock-down of key transcription factors on accessible chromatin in monocyte-derived dendritic cells.

2021-02-03 | E-MTAB-9926 | biostudies-arrayexpress

ChIP-seq of human monocytes and human monocyte-derived cells.

Project description:ChIP-seq was performed to map transcription factor (TF) binding in monocytes during in vitro differentiation. To map binding sites for TF lacking suitable antibodies we also performed mRNA transfections using synthetic mRNAs translating into 3xFLAG TF versions that were ChIPed using Anti-Flag antibody.

2021-02-03 | E-MTAB-9927 | biostudies-arrayexpress

5hmC capture-seq of human monocytes and human monocyte-derived cells

Project description:We performed 5'-hydroxymethylcytosine (5hmC) capture sequencing to study the dynamics of 5hmC deposition during monocyte differentiation

2021-02-03 | E-MTAB-9928 | biostudies-arrayexpress

HiC-sequencing in human monocyte differentiation (3D-MO)

Project description:This dataset consists of in situ HiC-seq data from human monocytes, monocyte-derived dendritic cells as well as monocyte-derived cells that were subjected to siRNA treatment targeting CTCF or RAD21. In total, the data set includes 42 samples.

2022-06-24 | E-MTAB-10848 | biostudies-arrayexpress

Trex1 knock out in cancer cell lines

Project description:We performed bulk RNA-seq on cell lines with and without knock out of the Trex1 gene.

2024-03-12 | E-MTAB-13815 | biostudies-arrayexpress

DNA methylation (MCIP-seq) of human acute leukemias and healthy donors

Project description:To measure methylation, we employed Methyl-CpG-immunoprecipitation (MCIP) a technique which relies on a fusion protein consisting of the methyl-binding domain (MBD) of MBD2 and the Fc portion of IgG1 to detect methylated regions, exploiting the natural preference of MBD for 5-methylcytosine (5-mC). MCIP-seq was performed using the EpiMark® Methylated DNA Enrichment Kit. MCIP-seq of 77 primary samples obtained from human acute leukemias, namely AML, T-ALL and mixed myeloid/lymphoid leukemias with CpG Island Methylator Phenotype (CIMP). Moreover, MCIP-seq of CD34+ HSPCs from 3 healthy donors is included. Due to patient confidentiality considerations, the raw data files for this dataset have been deposited to the EGA controlled-access archive under the accession numbers EGAS00001007094 (study); EGAD00001011052 (dataset).

2023-08-31 | E-MTAB-13120 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data