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Links from GEO DataSets

Items: 20

1.

FOXO3 Deficiency in Neutrophils Drives Colonic Inflammation and Tumorigenesis

(Submitter supplied) Inflammatory bowel disease (IBD), characterized by infiltration of polymorphonuclear neutrophils (PMNs), increases the risk of colon cancer. PMN activation corresponds to accumulation of their intracellular Lipid Droplets (LDs). As increased LDs are negatively regulated by transcription factor FOXO3, our aim is to determine the significance of this regulatory network in PMN-mediated IBD and tumorigenesis. more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL30172
11 Samples
Download data: XLSX
Series
Accession:
GSE234072
ID:
200234072
2.

FOXO3 expression in macrophages is lowered by high fat diet and  regulates colonic inflammation and tumorigenesis

(Submitter supplied) Obesity, characterized by augmented inflammation and tumorigenesis, is linked to genetic predispositions, such as FOXO3 polymorphisms. As obesity is associated with aberrant macrophages infiltrating different tissue including the colon, we aimed to identify FOXO3-dependent transcriptomic changes in macrophages that drive obesity-mediated colonic inflammation and tumorigenesis. We found that in mouse colons, high-fat-diet-(HFD)-obesity led to diminished FOXO3 levels and increased macrophages. more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL19057
6 Samples
Download data: TSV
Series
Accession:
GSE198058
ID:
200198058
3.

MTG16 regulates colonic epithelial differentiation, colitis, and tumorigenesis by repressing E protein transcription factors

(Submitter supplied) Aberrant epithelial differentiation and regeneration contribute to colon pathologies, including inflammatory bowel disease (IBD) and colitis-associated cancer (CAC). Myeloid translocation gene 16 (MTG16, also known as CBFA2T3) is a transcriptional corepressor expressed in the colonic epithelium. MTG16 deficiency in mice exacerbates colitis and increases tumor burden in CAC, though the underlying mechanisms remain unclear. more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL24247
42 Samples
Download data: CSV
Series
Accession:
GSE201768
ID:
200201768
4.

Copper Metabolism Domain-Containing 1 Represses Genes That Promote Inflammation and Protects Mice From Colitis and Colitis-Associated Cancer

(Submitter supplied) Background & Aims Activation of the transcription factor nuclear factor-κB (NF-κB) has been associated with the development of inflammatory bowel disease (IBD). Copper metabolism MURR1 domain containing 1 (COMMD1), a regulator of various transport pathways, has been shown to limit NF-κB activation. We investigated the roles of COMMD1 in the pathogenesis of colitis in mice and IBD in human beings.
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL11202
12 Samples
Download data: TXT
Series
Accession:
GSE53368
ID:
200053368
5.

FOXO3 selectively amplifies enhancer activity to establish target gene regulation.

(Submitter supplied) Forkhead Box O (FOXO) transcription factors are versatile players in diverse cellular processes, affecting tumorigenesis, metabolism, stem cell maintenance and lifespan. To understand the transcriptional output of FOXO3 activation, we investigate features that define the subset of enhancer binding events that actually contribute to gene regulation. We show FOXO3 transcriptional output is determined by the amount of bound FOXO3, which in turn is determined by motif presence, pre-existing enhancer activity and accessibility. more...
Organism:
Homo sapiens
Type:
Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing
Platform:
GPL16288
18 Samples
Download data: BED, RPKM
Series
Accession:
GSE50243
ID:
200050243
6.

Gene expression profile at single cell level of Paneth cells from the small intestine upon genetic targeting and in inflammatory conditions

(Submitter supplied) We combined lineage tracing with single cell RNA sequencing (scRNA-seq) to study the mechanisms underlying the conversion of Paneth cells into bona fide tumor cells.
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL24247
5 Samples
Download data: MTX, TSV
Series
Accession:
GSE221820
ID:
200221820
7.

Transcriptomic characterization of Paneth-derived and Intestinal stem cell-derived murine intestinal tumors

(Submitter supplied) To investigate the effect of the cell-of-origin on the transcriptional phenotype of the tumor, we performed bulk RNAseq on macroscopically dissected intestinal tumors from mice carrying lineage-specific Apc/Kras mutations in Paneth or ISC cells. Where indicated, tumorigenisis was triggered in an inflammatory context by administration of Dextran Sodium Sulfate (DSS).
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL28457
15 Samples
Download data: TSV
Series
Accession:
GSE221819
ID:
200221819
8.

Effect of western-style diet on gene expression of mouse intestinal Paneth cells

(Submitter supplied) To investigate the effect of wetern-style diet on Paneth cells, we performed bulk RNAseq on sorted Paneth cells from mice fed for 3 months with western-style diet (NWD1) and control diet (AIN76A)
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL17021
6 Samples
Download data: TSV
Series
Accession:
GSE221818
ID:
200221818
9.

Comprehensive gene expression changes by the expression levels of Dicer protein

(Submitter supplied) MicroRNA regulates gene expression. In this experiment, we determined the gene expression changes by the microRNA expression status using Dicer protein nulll. Wildtype, and intermediate expression.
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL13915
3 Samples
Download data: TXT
Series
Accession:
GSE85909
ID:
200085909
10.

Expression levels of mature miRNAs from Caco2 cell treated with inflammatory cytokines

(Submitter supplied) We used microarray to determine the miRNA whose expression was changed at 6 hours after inflammatory cytokines (TNFα, IL1α, IL1β, or IL6) treatment.
Organism:
Homo sapiens
Type:
Non-coding RNA profiling by array
Platform:
GPL15446
5 Samples
Download data: TXT
Series
Accession:
GSE37288
ID:
200037288
11.

Generation of FOXO3 engineered human stem cells with enhanced efficacy and safety

(Submitter supplied) FOXO3 is an evolutionally conserved transcription factor that has been linked to longevity. Here we asked whether human stem cells could be functionally enhanced by engineering them to express an activated form of FOXO3. This was accomplished via HDAdV-mediated gene editing of human embryonic stem cells. These cells were then differentiated into a range of vascular cell types, as FOXO3 has been shown to play a protective role in the cardiovascular system. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing; Methylation profiling by high throughput sequencing; Other
Platform:
GPL20301
81 Samples
Download data: TXT, WIG
Series
Accession:
GSE116277
ID:
200116277
12.

Epithelial Hypoxia-Inducible Factor 2α Facilitates the Progression of Colon Tumors through Recruiting Neutrophils

(Submitter supplied) Inflammation is a significant risk factor for colon cancer. Recent work has demonstrated essential roles for several infiltrating immune populations in the metaplastic progression following inflammation. Hypoxia and stabilization of hypoxia-inducible factors (HIFs) are hallmark features of inflammation and solid tumors. Previously, we demonstrated an important role for tumor epithelial HIF-2α in colon tumors; however, the function of epithelial HIF-2α as a critical link in the progression of inflammation to cancer has not been elucidated. more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL17021
18 Samples
Download data: TXT
Series
Accession:
GSE173363
ID:
200173363
13.

Gene Expression profiles of colon from Hif-1α+/+, Hif-1αLSL/LSL

(Submitter supplied) To investigate the detailed molecular mechanisms for the regulatory role of HIF-1α in colon, microarray gene expression analysis was performed on colon RNA isolated from 6- to 8-week-old Hif-1α+/+, Hif-1αLSL/LSL mice. Background & Aims: The progression and growth of solid tumors leads to a state where tumors outgrow their capacity for efficient oxygenation and nutrient uptake and an increase in tumor hypoxia. more...
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL11533
2 Samples
Download data: CEL
Series
Accession:
GSE55915
ID:
200055915
14.

Unique features of co-existence of classical neutrophils and polymorphonuclear myeloid-derived suppressor cells in cancer

(Submitter supplied) In this study, using single cell RNAseq, cell mass-spectrometry, flow cytometry, and functional analysis, we characterized the heterogeneity of polymorphonuclear neutrophils (PMN) in cancer. We described three populations of PMN in tumor-bearing mice: classical PMN, polymorphonuclear myeloid derived suppressor cells (PMN-MDSC), and activated PMN-MDSC with potent immune suppressive activity. In spleens of mice, PMN-MDSC gradually replaced PMN during tumor progression. more...
Organism:
Homo sapiens; Mus musculus
Type:
Expression profiling by high throughput sequencing
Platforms:
GPL11154 GPL19057
13 Samples
Download data: MTX, TSV
Series
Accession:
GSE163834
ID:
200163834
15.

Characterization of hepatic gene expression during liver regeneration in response to partial hepatectomy

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Mus musculus
Type:
Expression profiling by array
Platforms:
GPL81 GPL1261
81 Samples
Download data: CEL
Series
Accession:
GSE20427
ID:
200020427
16.

Hepatic gene expression during liver regeneration in response to partial hepatectomy: late time points (24h, 38h, 48h)

(Submitter supplied) The process of liver regeneration can be divided into a series of stages that include initial inductive or priming events through cellular mitosis. Following two-thirds liver resection, the liver undergoes the “priming” phase, in which cytokines TNF-a and IL-6 activate their respective receptors in hepatocytes. This leads to the activation of several key transcription factors: NF-kB, AP-1, Stat 3, Stat 1, and C/EBP-b and -d . more...
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL1261
35 Samples
Download data: CEL
Series
Accession:
GSE20426
ID:
200020426
17.

Hepatic gene expression during liver regeneration in response to partial hepatectomy: early time points (0.5h,1h,2h,4h)

(Submitter supplied) The process of liver regeneration can be divided into a series of stages that include initial inductive or priming events through cellular mitosis. Following two-thirds liver resection, the liver undergoes the “priming” phase, in which cytokines TNF-a and IL-6 activate their respective receptors in hepatocytes. This leads to the activation of several key transcription factors: NF-kB, AP-1, Stat 3, Stat 1, and C/EBP-b and -d . more...
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL81
46 Samples
Download data: CEL
Series
Accession:
GSE20425
ID:
200020425
18.

Regulation of Glucose Uptake and Inflammation by FOXO1 and FOXO3 in Skeletal Muscle

(Submitter supplied) Forkhead box class O (FoxO) transcription factors regulate whole body energy metabolism, skeletal muscle mass and substrate switching. To elucidate the role of FOXO in skeletal muscle, dominant negative (dn) constructs for FOXO1 (FOXO1dn) or FOXO3 (FOXO3dn) were transfected by electroporation into mouse tibialis anterior muscle and glucose uptake, signal transduction, and glucose stimulated gene expression profiles were assessed. more...
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL17400
24 Samples
Download data: CEL
Series
Accession:
GSE105778
ID:
200105778
19.

Tcf-1 expression in murine thymus

(Submitter supplied) The DNA binding factor Tcf-1 is one of the most prominently expressed genes in thymocytes yet its global DNA binding pattern remained unknown. Here we have assessed by ChIP-seq the Tcf-1 binding pattern in murine thymocytes in WT B6 mice and in mice expressing a stabilized form of the Tcf-1 binding partner beta-Catenin (CAT mice).
Organism:
Mus musculus
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL9250
6 Samples
Download data: WIG
Series
Accession:
GSE46662
ID:
200046662
20.

Expression data from T-cells isolated from healthy mice or mice with polyposis

(Submitter supplied) There is much controversy about the role of T-regulatory cells (Treg) in human colon cancer. High densities of tumor-infiltrating Treg can correlate with better or worse clinical outcomes depending on the sutdy. Treg have potent anti-inflammatory functions that have been shown to control cancer progression. However, Treg isolated from patient with colon cancer or in mouse models of polyposis do not have the ability to suppress inflammation and instead promote cancer. more...
Organism:
Mus musculus
Type:
Expression profiling by array
Dataset:
GDS4588
Platform:
GPL6246
44 Samples
Download data: CEL
Series
Accession:
GSE41229
ID:
200041229
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