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Links from GEO DataSets

Items: 20

1.

Transcriptome-based network analysis reveals a spectrum model of human macrophage activation [ChIP-Seq]

(Submitter supplied) Macrophage activation is associated with profound transcriptional reprogramming. Although much progress has been made in the understanding of macrophage activation, polarization and function, the transcriptional programs regulating these processes remain poorly characterized. We stimulated human macrophages with diverse activation signals, acquiring a dataset of 299 macrophage transcriptomes. Analysis of this dataset revealed a spectrum of macrophage activation states extending the current M1 versus M2-polarization model. more...
Organism:
Homo sapiens
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL15456
8 Samples
Download data
Series
Accession:
GSE47188
ID:
200047188
2.

Epigenomic landscapes of human inflammation associated macrophages

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing
Platforms:
GPL15456 GPL18460
30 Samples
Download data: TXT
Series
Accession:
GSE66595
ID:
200066595
3.

Epigenomic landscapes of human inflammation associated macrophages [ChIP-seq]

(Submitter supplied) We previously demonstrated by genomic and bioinformatical approaches that human macrophage (MΦ) activation is best described by a spectrum model (Xue et al, Immunity, 2014). MΦ integrate exogenous input signals on transcriptional level in a unique fashion to generate specific functional programs, enabling the plasticity in disease-related pathophysiologies. Such versatile responsiveness requires fast changes of transcription mediated by transcriptional regulators (TRs) or epigenomic changes. more...
Organism:
Homo sapiens
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL18460
24 Samples
Download data: TXT
Series
Accession:
GSE66594
ID:
200066594
4.

Epigenomic landscapes of human inflammation associated macrophages [RNA-seq]

(Submitter supplied) We previously demonstrated by genomic and bioinformatical approaches that human macrophage (MΦ) activation is best described by a spectrum model (Xue et al, Immunity, 2014). MΦ integrate exogenous input signals on transcriptional level in a unique fashion to generate specific functional programs, enabling the plasticity in disease-related pathophysiologies. Such versatile responsiveness requires fast changes of transcription mediated by transcriptional regulators (TRs) or epigenomic changes. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL15456
6 Samples
Download data: TXT
Series
Accession:
GSE66593
ID:
200066593
5.

Transcriptome-based network analysis reveals a spectrum model of human macrophage activation [miRNA-seq]

(Submitter supplied) Macrophage activation is associated with profound transcriptional reprogramming. Although much progress has been made in the understanding of macrophage activation, polarization and function, the transcriptional programs regulating these processes remain poorly characterized. We stimulated human macrophages with diverse activation signals, acquiring a dataset of 299 macrophage transcriptomes. Analysis of this dataset revealed a spectrum of macrophage activation states extending the current M1 versus M2-polarization model. more...
Organism:
Homo sapiens
Type:
Non-coding RNA profiling by high throughput sequencing
Platform:
GPL15456
20 Samples
Download data: TXT
Series
Accession:
GSE51307
ID:
200051307
6.

Transcriptome-based network analysis reveals a spectrum model of human macrophage activation

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Homo sapiens
Type:
Expression profiling by array; Genome binding/occupancy profiling by high throughput sequencing
Platforms:
GPL15456 GPL6947
412 Samples
Download data
Series
Accession:
GSE47189
ID:
200047189
7.

Transcriptome-based network analysis reveals a spectrum model of human macrophage activation [Expression]

(Submitter supplied) Macrophage activation is associated with profound transcriptional reprogramming. Although much progress has been made in the understanding of macrophage activation, polarization and function, the transcriptional programs regulating these processes remain poorly characterized. We stimulated human macrophages with diverse activation signals, acquiring a dataset of 299 macrophage transcriptomes. Analysis of this dataset revealed a spectrum of macrophage activation states extending the current M1 versus M2-polarization model. more...
Organism:
Homo sapiens
Type:
Expression profiling by array; Third-party reanalysis
Platform:
GPL6947
384 Samples
Download data: TXT
Series
Accession:
GSE46903
ID:
200046903
8.

Transcriptome wide analysis of classically and alternatively activated macrophages

(Submitter supplied) Next-generation sequencing (NGS) has revolutionized systems-based analysis of cellular pathways. The goals of this study are to compare NGS-derived human M1- and M2-like macrophage profiling (RNA-seq) to microarray and quantitative reverse transcription polymerase chain reaction (qRT–PCR) methods and to establish a high resolution transcriptome of human macrophages. Total RNA was isolated from classically and aternative activated human macrophages.mRNA profiles were generated by deep sequencing og M1 and M2 macrophages from 3 donors using Illumina HiSeqSQ. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL11154
6 Samples
Download data: TXT
Series
Accession:
GSE36952
ID:
200036952
9.

Dynamic transcriptional control of macrophage miRNA signature via inflammation responsive enhancers revealed using a combination of next generation sequencing-based approaches

(Submitter supplied) MicroRNAs are important components of the post-transcriptional fine-tuning of macrophage gene expression in physiological and pathological conditions. However, the mechanistic underpinnings and the cis-acting genomic factors of how macrophage polarizing signals induce miRNA expression changes are not well characterized. Therefore, we systematically evaluated the transcriptional basis underlying the inflammation-mediated regulation of macrophage microRNome using the combination of different next generation sequencing datasets. more...
Organism:
Mus musculus
Type:
Non-coding RNA profiling by high throughput sequencing; Other
Platform:
GPL17021
8 Samples
Download data: BEDGRAPH, TSV
Series
Accession:
GSE107095
ID:
200107095
10.

Expression and ChIP-seq analysis LPS stimulated THP-1 cells

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Homo sapiens
Type:
Expression profiling by array; Genome binding/occupancy profiling by high throughput sequencing
Platforms:
GPL9052 GPL5175
26 Samples
Download data: BED, CEL
Series
Accession:
GSE32325
ID:
200032325
11.

ChIP-seq analysis LPS stimulated THP-1 cells

(Submitter supplied) Macrophages play a critical role in innate immunity, and the expression of early response genes orchestrate much of the initial response of the immune system. Macrophages undergo extensive transcriptional reprogramming in response to inflammatory stimuli such as Lipopolysaccharide (LPS). To identify gene transcription regulation patterns involved in early innate immune responses, we used two genome-wide approaches - gene expression profiling and chromatin immunoprecipitation-sequencing (ChIP-seq) analysis. more...
Organism:
Homo sapiens
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL9052
18 Samples
Download data: BED
Series
Accession:
GSE32324
ID:
200032324
12.

Expression analysis LPS stimulated THP-1 cells in four paired samples

(Submitter supplied) Macrophages play a critical role in innate immunity, and the expression of early response genes orchestrate much of the initial response of the immune system. Macrophages undergo extensive transcriptional reprogramming in response to inflammatory stimuli such as Lipopolysaccharide (LPS). To identify gene transcription regulation patterns involved in early innate immune responses, we used two genome-wide approaches - gene expression profiling and chromatin immunoprecipitation-sequencing (ChIP-seq) analysis. more...
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL5175
8 Samples
Download data: CEL
Series
Accession:
GSE32141
ID:
200032141
13.

Mechanisms Establishing TLR4-Responsive Activation States of Inflammatory Response Genes

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Mus musculus
Type:
Expression profiling by array; Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing
4 related Platforms
55 Samples
Download data: BED, FA, TXT
Series
Accession:
GSE23622
ID:
200023622
14.

Mechanisms Establishing TLR4-Responsive Activation States of Inflammatory Response Genes (Illumina expression data)

(Submitter supplied) Precise control of the innate immune response is required for resistance to microbial infections and maintenance of normal tissue homeostasis. Because this response involves coordinate regulation of hundreds of genes, it provides a powerful biological system to elucidate the molecular strategies that underlie signal- and time-dependent transitions of gene expression. Using a combination of genome-wide and gene-specific approaches, we provide evidence that rather than representing off/on transitions, Toll-like receptor 4 (TLR4)-dependent activation of nearly all immediate/early (I/E) and late response genes results from a sequential process in which signal-independent factors, exemplified by Gabpa, initially establish basal levels of gene expression that are then amplified by signal-dependent transcription factors. more...
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL6100
8 Samples
Download data: TXT
Series
Accession:
GSE23621
ID:
200023621
15.

Mechanisms Establishing TLR4-Responsive Activation States of Inflammatory Response Genes (Agilent expression data)

(Submitter supplied) Precise control of the innate immune response is required for resistance to microbial infections and maintenance of normal tissue homeostasis. Because this response involves coordinate regulation of hundreds of genes, it provides a powerful biological system to elucidate the molecular strategies that underlie signal- and time-dependent transitions of gene expression. Using a combination of genome-wide and gene-specific approaches, we provide evidence that rather than representing off/on transitions, Toll-like receptor 4 (TLR4)-dependent activation of nearly all immediate/early (I/E) and late response genes results from a sequential process in which signal-independent factors, exemplified by Gabpa, initially establish basal levels of gene expression that are then amplified by signal-dependent transcription factors. more...
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL7202
24 Samples
Download data: TXT
Series
Accession:
GSE23620
ID:
200023620
16.

Mechanisms Establishing TLR4-Responsive Activation States of Inflammatory Response Genes (Illumina sequencing data)

(Submitter supplied) Precise control of the innate immune response is required for resistance to microbial infections and maintenance of normal tissue homeostasis. Because this response involves coordinate regulation of hundreds of genes, it provides a powerful biological system to elucidate the molecular strategies that underlie signal- and time-dependent transitions of gene expression. Using a combination of genome-wide and gene-specific approaches, we provide evidence that rather than representing off/on transitions, Toll-like receptor 4 (TLR4)-dependent activation of nearly all immediate/early (I/E) and late response genes results from a sequential process in which signal-independent factors, exemplified by Gabpa, initially establish basal levels of gene expression that are then amplified by signal-dependent transcription factors. more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing
Platforms:
GPL9250 GPL9185
23 Samples
Download data: BED, FA, TXT
Series
Accession:
GSE23619
ID:
200023619
17.

Cell-Specific Determinants of PPARg Function in Adipocytes and Macrophages

(Submitter supplied) The nuclear receptor Peroxisome Proliferator Activator Receptor (PPAR ) is the target of antidiabetic thiazolidinedione drugs, which improve insulin resistance but have side-effects that limit widespread use. PPAR is required for adipocyte differentiation, but is also expressed in other cell types, notably macrophages, where it influences atherosclerosis, insulin resistance, and inflammation. A central question is whether PPAR binding in macrophages occurs at the same or different genomic locations compared to adipocytes. more...
Organism:
Mus musculus
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL9250
6 Samples
Download data: BED, TXT
Series
Accession:
GSE21314
ID:
200021314
18.

THOC5, a member of the mRNA export complex, is essential for hematopoiesis in vivo and is required for CSF-1 induced macrophage differentiation

(Submitter supplied) THOC5, a member of the mRNA export complex, is essential for hematopoiesis in vivo and is required for CSF-1 induced macrophage differentiation, thereby playing a key role in the mRNA export of immediate early genes induced by CSF-1 stimulation. Hematopoiesis, growth, differentiation, and commitment to a restricted lineage are guided by a timely expressed set of cytokine receptors and their down-stream transcription factor genes. more...
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL10333
8 Samples
Download data: TXT
Series
Accession:
GSE41170
ID:
200041170
19.

Gene Expression in Naive and Tolerant Macrophages stimulated with LPS

(Submitter supplied) The inflammatory response initiated by microbial products signaling through Toll-like receptors (TLRs) of the innate immune system is essential for host defense against infection. Because inflammation can be harmful to host tissues, the innate response is highly regulated. Negative regulation of TLR4, the receptor for bacterial lipopolysaccharide (LPS), results in LPS tolerance, defined as hyporesponsiveness to repeated stimulation with LPS. more...
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL1261
6 Samples
Download data: CEL, CHP
Series
Accession:
GSE7348
ID:
200007348
20.

Tissue-resident macrophage enhancer landscapes are shaped by the local microenvironment

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Mus musculus
Type:
Other; Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing
Platform:
GPL18480
106 Samples
Download data: BIGWIG
Series
Accession:
GSE63341
ID:
200063341
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