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Links from GEO DataSets

Items: 20

1.
Full record GDS5655

Lymphotoxin-β receptor agonist antibody effect on lipopolysaccharide-stimulated embryonic fibroblasts

Analysis of MEFs treated for 24hrs with ligands lipopolysaccharide (LPS), lymphotoxin-β receptor agonist antibody (LTβR), and LPS+ LTβR. Results provide insight into molecular mechanisms underlying a potentially synergistic effect of LTβR signaling on LPS-TLR4 signaling.
Organism:
Mus musculus
Type:
Expression profiling by array, count, 4 protocol sets
Platform:
GPL6885
Series:
GSE62301
4 Samples
Download data
2.

Developmental LTbR synergistically activates TLR4 mediated inflammatory RelA/NF-kB response

(Submitter supplied) Developmental signals are known to modulate inflammation. How ever, the mechanistic insight that links developmental and inflammatory signaling remains elusive. In the current study, we identifya critical role of NF-kB system in mediating stimulus specific crosstalk that allows developmental LTbR signals to sustain inflammatory TLR4 induced RelA/NF-kB response and gene expression. LTbR activated non-canonical signaling targets canonical TLR4 induced, nfkb2 encoded p100 not only to deplete inhibitory IkBd/(p100)2, but also to supplement RelA:p52/NF-kB dimers. more...
Organism:
Mus musculus
Type:
Expression profiling by array
Dataset:
GDS5655
Platform:
GPL6885
4 Samples
Download data: TXT
Series
Accession:
GSE62301
ID:
200062301
3.

An epithelial Nfkb2 pathway exacerbates intestinal inflammation by supplementing latent RelA complexes to the canonical NF-kB module

(Submitter supplied) The canonical NF-kB module induces nuclear translocation of RelA heterodimers from the latent cytoplasmic complexes. RelA directs inflammatory immune responses against microbial entities. However, aberrant RelA activity also triggers destructive inflammation, including those associated with inflammatory bowel disease (IBD). What provokes this pathological RelA activity remains unclear. As such, the noncanonical NF-kB pathway activates RelB heterodimers and mediates immune organogenesis. more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL21103
12 Samples
Download data: TXT
Series
Accession:
GSE148577
ID:
200148577
4.

Immune differentiation regulator p100 tunes NF-kB responses to TNF

(Submitter supplied) Stringent regulation of TNF signaling prevents aberrant inflammation. TNF engages the canonical NF-kB pathway for activating the RelA:p50 heterodimer, which mediates specific expressions of pro-inflammatory and immune response genes. Importantly, the NF-kB system discriminates between time-varied TNF inputs. Negative feedback regulators of the canonical pathway, including IkBa, thought to ensure transient RelA:p50 responses to brief TNF stimulations. more...
Organism:
Mus musculus
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL19057
9 Samples
Download data: TXT
Series
Accession:
GSE119961
ID:
200119961
5.

Gene expression profile of the NF-κB subunit p52 in Hodgkin’s lymphoma

(Submitter supplied) Malignant cells of Hodgkin's lymphoma (HL) cells are characterized by constitutive activation of the canonical as well as the non-canonical NF-κB signaling cascades. Knockdown of a subunit combination corresponding to the non-canonical NF-κB dimer (p52/RelB) in the HL cell line L-1236 caused up-regulation of a set of genes that are associated with hematopoietic and lymphoid organ development. As p52 can form homodimeric complexes, which can repress transcription either alone or in association with transcriptional repressors such as HDAC1, we knocked down p52 alone to analyze its role in gene repression in HL cells. more...
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL6244
12 Samples
Download data: CEL
Series
Accession:
GSE64234
ID:
200064234
6.

Gene expression profiles of canonical and non-canonical NF-κB signaling pathways in Hodgkin’s lymphoma

(Submitter supplied) Malignant Hodgkin's lymphoma (HL) cells are characterized by constitutive activation of the canonical as well as the non-canonical NF-κB signaling cascades. We depleted subunit combinations corresponding to either canonical (p50/RelA) or non-canonical (p52/RelB) dimers in the HL cell line L-1236 and performed Affymetrix microarray analysis. Knockdown of p52/RelB affected the expression of a significantly higher number of genes than the knockdown of p50/RelA. more...
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL6244
24 Samples
Download data: CEL
Series
Accession:
GSE64232
ID:
200064232
7.

Genome wide binding sites of NF-κB subunits RelA, RelB, p50, and p52 in the Hodgkin lymphoma cell line L1236

(Submitter supplied) The malignant cells of Hodgkin's lymphoma are characterized by a constitutive activation of the canonical as well as the non-canonical NF-κB signaling cascades. We carried out genome-wide localization and expression profiling experiments in the Hodgkin lymphoma cell line L1236 for the canonical and non-canonical NF-κB pathway components p65, p50 and p52, RelB, respectively. We found that the single NF-κB subunits bind to overlapping, but distinct cistromes by using consensus motifs of high similarity.
Organism:
Homo sapiens
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platforms:
GPL11154 GPL9115
14 Samples
Download data: TXT
Series
Accession:
GSE63736
ID:
200063736
8.

RelA and RelB-dependent transcriptome analysis in lymphotoxin-ß receptor stimulated mouse embryonic fibroblasts

(Submitter supplied) Background: Lymphotoxin signaling via the lymphotoxin-β receptor (LTβR) has been implicated in several biological processes, ranging from development of secondary lymphoid organs, maintenance of splenic tissue, host defense against pathogens, autoimmunity, and lipid homeostasis. The major transcription factor that is activated by LTβR crosslinking is NF-κB. Two signaling pathways have been described that result in the activation of classical p50-RelA and alternative p52-RelB NF-κB heterodimers. more...
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL5979
18 Samples
Download data: TXT
Series
Accession:
GSE11963
ID:
200011963
9.

Laser Capture Microdissection of Hyperlipidemic Mouse Aorta Atherosclerosis

(Submitter supplied) Atherosclerosis is a transmural chronic inflammatory condition of small and large arteries that is associated with adaptive immune responses at all disease stages. However, impacts of adaptive immune reactions on clinically apparent atherosclerosis such as intima lesion (plaque) rupture, thrombosis, myocardial infarction, and aneurysm largely remain to be identified. It is increasingly recognized that leukocyte infiltrates in plaque, media, and adventitia are distinct but their specific roles have not been defined. more...
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL8321
19 Samples
Download data: CEL
Series
Accession:
GSE21419
ID:
200021419
10.

Mouse aorta smooth muscle cells differentiate into lymphoid tissue organizers upon combined TNFR1/LTBR NF-kB signaling

(Submitter supplied) Cultured mouse aorta endothelial cells (from 8-12 weeks old C57BL/6J mice, passage 2-3) were exposed to phosphate buffered saline (control) or a combination of TNFalpha plus agonistic alpha-LTßR antibody for 24 hours as described in Lötzer et al. 2009. Arterioscler. Thromb. Vasc. Biol., in press. Total RNA was extracted and microarrays were prepared.
Organism:
Mus musculus
Type:
Expression profiling by array
Dataset:
GDS3810
Platform:
GPL1261
5 Samples
Download data: CEL
Series
Accession:
GSE19139
ID:
200019139
11.

Mouse aorta smooth muscle cells differentiate into lymphoid tissue organizers upon combined TNFR1/LTBR NF-kB signaling

(Submitter supplied) Mouse aorta smooth muscle cells (SMCs) express TNF receptor superfamily member 1A (TNFR1) and lymphotoxin ß receptor (LTßR). Circumstantial evidence has linked the SMC LTßR to tertiary lymphoid organogenesis in diseased aortae of hyperlipidemic mice. Here, we explored potential roles of TNFR1 and LTßR activation in cultured SMCs. TNFR1 signaling by TNF activated the classical RelA NF-κB pathway, whereas LTßR signaling by agonistic anti LTßR antibody activated both the classical RelA and alternative RelB NF-κB pathways. more...
Organism:
Mus musculus
Type:
Expression profiling by array
Dataset:
GDS3809
Platform:
GPL1261
21 Samples
Download data: CEL
Series
Accession:
GSE15062
ID:
200015062
12.
Full record GDS3810

TNF receptor and lymphotoxin beta -receptor activation effect on aortic endothelial cells in vitro

Analysis of cultured aortic endothelial cells stimulated with a combination of tumor necrosis factor (TNF) and α-LTßR antibody for 24 hours. Unlike similarly-treated aortic smooth muscle cells (SMCs), the endothelial cells did not differentiate into a lymphoid tissue organizer (LTO) phenotype.
Organism:
Mus musculus
Type:
Expression profiling by array, count, 2 agent sets
Platform:
GPL1261
Series:
GSE19139
5 Samples
Download data: CEL
13.
Full record GDS3809

TNF receptor and lymphotoxin beta -receptor activation effect on aortic smooth muscle cells in vitro: time course

Analysis of cultured aortic smooth muscle cells (SMCs) stimulated with a combination of tumor necrosis factor (TNF) and α-LTβR monoclonal antibody for up to 24 hours. SMCs stimulated by TNF/α-LTβR mAb, but not with either agent alone, differentiate into lymphoid tissue organizer (LTO)-like cells
Organism:
Mus musculus
Type:
Expression profiling by array, count, 4 agent, 3 time sets
Platform:
GPL1261
Series:
GSE15062
21 Samples
Download data: CEL
14.

CDK12 mediated transcriptional regulation in U2OS cells

(Submitter supplied) While activation of canonical NF-κB signaling through the IKK complex is well studied, few regulators of NIK-dependent non-canonical p52 nuclear translocation have been identified. We discovered a novel role for cyclin dependent kinase 12 (CDK12) in transcriptionally regulating the non-canonical NF-κB pathway. High-content phenotypic screening identified a novel compound, 919278, which inhibits lymphotoxin β receptor (LTβR)- and FN14-dependent p52 nuclear translocation, but not TNFα receptor (TNFR)-mediated, canonical NF-κB p65 nuclear translocation. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL16791
56 Samples
Download data: TXT
Series
Accession:
GSE113926
ID:
200113926
15.

Effect of ablation of the alternative NF-kB pathway on the regulatory T cell (Treg) transcriptome

(Submitter supplied) We report here the transcriptome analysis of in-vitro stimulated WT, nfkb2-/-, Relb-/- and nfkb2-/-Relb-/- murine Treg cells
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL17021
8 Samples
Download data: TXT
Series
Accession:
GSE108532
ID:
200108532
16.

Type 3 innate lymphoid cells direct goblet cell differentiation via the LT-LTβR pathway during Listeria infection

(Submitter supplied) As a specialized subset of intestinal epithelial cells (IECs), goblet cells (GCs) play an important role during the antibacterial response via mucin production. However, the regulatory mechanisms involved in GC differentiation and function during infection, particularly the role of immune cell-IEC crosstalk, remain largely unknown. Here, using VillinΔLtbr conditional knockout mice, we demonstrate that LTβR, expressed on IECs, is required for GC hyperplasia and mucin 2 (MUC2) expression during Listeria infection for host defense but not homeostatic maintenance in the naïve state. more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL24247
5 Samples
Download data: CSV
Series
Accession:
GSE150071
ID:
200150071
17.

Variation of genome-wide NF-kappa B RELA binding sites in response to different microbial stimuli

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Homo sapiens
Type:
Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing
Platforms:
GPL16791 GPL21697
33 Samples
Download data: DIFF, WIG
Series
Accession:
GSE91020
ID:
200091020
18.

Gene expression response to 5 microbial stimuli in Detroit562 cells [RNA-seq]

(Submitter supplied) NFKB is a family of transcription factors (TF), which are master regulators of the innate immune system. It is activated downstream of pathogen recognition receptors after ligand binding and regulates the expression of antimicrobials, cytokines and chemokines, thus helping to fight infections as well as recruiting the adaptive immune system. Although NFKB responds to a wide variety of signals, the processes in which stimulus-specificity is attained are still unclear. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL21697
14 Samples
Download data: DIFF
19.

Genome-wide RELA binding sites in response to 5 microbial stimuli in Detroit562 cells [ChIP-seq]

(Submitter supplied) NFKB is a family of transcription factors (TF), which are master regulators of the innate immune system. It is activated downstream of pathogen recognition receptors after ligand binding and regulates the expression of antimicrobials, cytokines and chemokines, thus helping to fight infections as well as recruiting the adaptive immune system. Although NFKB responds to a wide variety of signals, the processes in which stimulus-specificity is attained are still unclear. more...
Organism:
Homo sapiens
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL16791
19 Samples
Download data: BED, WIG
Series
Accession:
GSE91018
ID:
200091018
20.

Analysis of lung transcriptomic changes following inhibition of LTβR-signalling in cigarette smoke exposed mice

(Submitter supplied) How LTβR-signalling drives chronic tissue damage particularly in the lung, which mechanisms regulate this process, and whether LTβR-blockade might be of therapeutic value has remained unclear. To study the mechanisms underlying LTβR-inhibition, a transcriptional analysis was performed on lung tissue from B6 mice exposed to cigarette smoke for 6 months and treated therapeutically with LTβR-Ig from 4 to 6 months compared to mice exposed to cigarette smoke for 6 months and treated with control Ig from 4 to 6 months and filtered air control. more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL21103
13 Samples
Download data: MTX, TXT
Series
Accession:
GSE151674
ID:
200151674
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