DOI%3A%2010.1128/mBio.01409-21 - GEO DataSets

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Select item 2002641711.

Effects at the transcriptomic level after knockout of Eed, Ezh2, Brd8 or Nr6a1 in spinal cord neural progenitor differentiation [bulkRNAseq]

(Submitter supplied) The vertebrate neural tube generates a large diversity of molecularly and functionally distinct neurons and glia from a small progenitor pool. While the role of spatial patterning in organising cell fate specification has been extensively studied, temporal patterning, which controls the timing of cell type generation, is equally important. Here we define a global temporal programme in the spinal cord. more...

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL24247
41 Samples

Download data: CSV

Series

Accession:: GSE264171

ID:: 200264171

Select item 2002641702.

A shared temporal program for ventral spinal cord progenitors [CaTS-RNA]

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL21103
66 Samples

Download data: TXT

Series

Accession:: GSE264170

ID:: 200264170

Select item 2002641493.

Effects of Nr6a1 overexpression in neural progenitors at the chromatin level [ATAC-seq]

Organism:: Mus musculus

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL24247
6 Samples

Download data: TXT

Series

Accession:: GSE264149

ID:: 200264149

Select item 2002639634.

The temporal progression of lung immune remodeling during breast cancer metastasis

(Submitter supplied) The dynamics of immune reprogramming in the breast cancer lung metastastic niche remains incomplete. We used MULTI-seq (McGinnis, Patterson, et al., Nature Methods, 2019) to perform multiplexed single-cell RNA-sequencing analysis of cryopreserved lung immune cells isolated from PyMT mice, freshly-isolated lung immune cells isolated from PyMT mice, and cryopreserved lung immune cells isolated from 4T1 tumor-bearing mice from the onset of primary tumorigenesis through the formation of macrometastatic lesions. more...

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL24247
38 Samples

Download data: CSV, MTX, TSV, TXT

Series

Accession:: GSE263963

ID:: 200263963

Select item 2002242095.

Macrophage epigenetic memories of early life injury drive neonatal nociceptive priming.

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL24247
21 Samples

Download data: BED, BW, TXT

Series

Accession:: GSE224209

ID:: 200224209

Select item 2002641726.

The cis-regulatory logic integrating spatial and temporal patterning in the vertebrate neural tube

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:: Mus musculus

Type:: Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing

Platforms:: GPL21103 GPL24247
113 Samples

Download data

Series

Accession:: GSE264172

ID:: 200264172

Select item 2002191117.

Developmental Programming: adipose depot-specific regulation of non-coding RNAs and their relation to coding RNA expression in prenatal testosterone and prenatal bisphenol-A -treated female sheep

(Submitter supplied) Inappropriate developmental exposure to steroids is linked to metabolic disorders. Prenatal testosterone excess or bisphenol A (BPA, an environmental estrogen mimic) leads to insulin resistance and adipocyte disruptions in female sheep. Adipocytes are key regulators of insulin sensitivity and tissue-specific differences in insulin sensitivity, coupled with adipose depot-specific changes in key mRNAs, were previously observed. more...

Organism:: Ovis aries

Type:: Non-coding RNA profiling by high throughput sequencing

Platform:: GPL22509
48 Samples

Download data: CSV

Series

Accession:: GSE219111

ID:: 200219111

Select item 2002183908.

RAS Pathway–Mutated Chronic Myelomonocytic Leukemia at the Single Cell Level

(Submitter supplied) RAS pathway mutations, which are present in 30% of patients with chronic myelomonocytic leukemia (CMML) at diagnosis, confer a high risk of resistance to and progression after hypomethylating agent (HMA) therapy, the current standard of care for the disease. Using single-cell, multi-omics technologies, we sought to dissect the biological mechanisms underlying the initiation and progression of RAS pathway–mutated CMML. more...

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platforms:: GPL18573 GPL24676
36 Samples

Download data: H5

Series

Accession:: GSE218390

ID:: 200218390

Select item 2001932099.

Swd2/Cps35 determines H3K4 tri-methylation via interactions with Set1 and Rad6_Chromatin occupancy of Rad6 and Swd2 in several strains.

(Submitter supplied) Histone H3K4 tri-methylation (H3K4me3) catalyzed by Set1/COMPASS, is a prominent epigenetic mark found in promoter-proximal regions of actively transcribed genes. H3K4me3 relies on prior monoubiquitination at the histone H2B (H2Bub) by Rad6 and Bre1. Swd2/Cps35, a Set1/COMPASS component, has been proposed as a key player in facilitating H2Bub-dependent H3K4me3. However, a more comprehensive investigation regarding the relationship among Rad6, Swd2 and Set1 is required to further understand the mechanisms and functions of the H3K4 methylation. more...

Organism:: Saccharomyces cerevisiae

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL17342
21 Samples

Download data: BW

Series

Accession:: GSE193209

ID:: 200193209

Select item 20022681610.

Generation of Anterior Eye Cells from hiPSCs in Microfluidic Platforms

(Submitter supplied) To generate a microfluidic platform to understand micro-physiological features of hiPSC-derived anterior part of the eye, such as mechano-transduction.

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL24676
14 Samples

Download data: CSV

Series

Accession:: GSE226816

ID:: 200226816

Select item 20020117711.

Transcriptomic profiling of highly- and lowly- metastasizing pancreatic ductal carcinoma cells

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:: Homo sapiens; Mus musculus

Type:: Expression profiling by high throughput sequencing

Platforms:: GPL18573 GPL19057
23 Samples

Download data

Series

Accession:: GSE201177

ID:: 200201177

Select item 20020117612.

Transcriptomic profiling of highly- and lowly- metastasizing pancreatic ductal carcinoma cells [mRNAseq shNPTX1]

(Submitter supplied) To interrogate transcriptomic changes in highly liver metastatic pancreatic ductal carcinoma cells as relative to their isogenic lowly metastatic cells

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL18573
11 Samples

Download data: CSV

Series

Accession:: GSE201176

ID:: 200201176

Select item 20020117513.

Transcriptomic profiling of highly- and lowly- metastasizing pancreatic ductal carcinoma cells [mRNAseq in vivo selection]

(Submitter supplied) To interrogate transcriptomic changes in highly liver metastatic pancreatic ductal carcinoma cells as relative to their isogenic lowly metastatic cells

Organism:: Mus musculus; Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platforms:: GPL19057 GPL18573
12 Samples

Download data: CSV

Series

Accession:: GSE201175

ID:: 200201175

Select item 20026435214.

Enfortumab Vedotin Induces Immunogenic Cell Death and Shows Enhanced Preclinical Antitumor Activity When Combined With a PD-1 Inhibitor

(Submitter supplied) Enfortumab vedotin is a Nectin-4-directed antibody–drug conjugate designed to deliver the microtubule-disrupting agent monomethyl auristatin E (MMAE) in tumor cells. Using preclinical models of urothelial cancer (UC), we expand the understanding of the multifaceted mechanism of action for enfortumab vedotin that includes direct cytotoxicity on Nectin-4–positive tumor cells, indirect bystander effect on neighboring Nectin-4–negative tumor cells, and MMAE-mediated induction of immunogenic cell death (ICD) and associated increase in activated immune cells in the tumor microenvironment. more...

Organism:: Homo sapiens; Mus musculus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL16512
21 Samples

Download data: TXT

Series

Accession:: GSE264352

ID:: 200264352

Select item 20026401615.

Porcine Rotavirus VP6 Protein Wrests IPEC-J2 METTL3-Mediated M6A Modification to Fight Antiviral Immune Response

(Submitter supplied) N6-methyladenosine (m6A), the most abundant mRNA modification, can regulate various mRNA metabolism to affect numerous physiological and pathophysiological processes, including immune function. However, the regulation of m6A methylation and its role in immune defense against virus infections remain unexplored. Here, we found that Porcine rotavirus (PoRV) infection decreased global m6A levels in host cells by downregulating m6A writer METTL3. more...

Organism:: Porcine rotavirus; Sus scrofa

Type:: Other

Platforms:: GPL34387 GPL22475
18 Samples

Download data: BW

Series

Accession:: GSE264016

ID:: 200264016

Select item 20026391116.

AML1-ETO and CCND2 overexpression¬ cooperate to drive acute myeloid leukemia initiation and progression

(Submitter supplied) Increasing numbers of clinical cohorts have detected CCND2 mutations in acute myeloid leukemia (AML), especially in the subtype of AML with t(8;21) translocation. As known, this AML subtype is characterized by the formation of AML1-ETO fusion gene. However, AML1-ETO fusion gene alone is not sufficient to drive leukemia development, additional mutations are required for leukemogenesis. Here, we aim to investigate whether mutated CCND2 can cooperate with AML1-ETO fusion gene to drive leukemia initiation and progression. more...

Organism:: Mus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL31136
9 Samples

Download data: TXT

Series

Accession:: GSE263911

ID:: 200263911

Select item 20024816717.

Tumor immune dysfunction and exclusion subtypes in bladder cancer and pan-cancer: a novel molecular subtyping strategy and immunotherapeutic prediction model

(Submitter supplied) Molecular subtyping is expected to enable bladder cancer (BC) precise treatment. However, reliable subtyping strategies for clinical application remains defective and controversial. Given the significance of tumor immune dysfunction and exclusion (TIDE) in tumor immune escape and immunotherapy, we aimed to develop a novel TIDE-based subtyping method to facilitate personalized management. Transcriptome data of BC was used to evaluate the heterogeneity and the status of TIDE patterns. more...

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL24676
51 Samples

Download data: TXT

Series

Accession:: GSE248167

ID:: 200248167

PubMed Full text in PMC Similar studies

Select item 20024719818.

Epigenetic age oscillates during the day

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:: Homo sapiens

Type:: Methylation profiling by array

Platforms:: GPL13534 GPL21145
96 Samples

Download data: IDAT

Series

Accession:: GSE247198

ID:: 200247198

PubMed Similar studies

Select item 20024719519.

Epigenetic age oscillates during the day (Neu 54 yr old)

(Submitter supplied) Since their introduction, epigenetic clocks have been extensively used in aging and human disease research. In this study, we reveal an intriguing pattern: epigenetic age predictions display a 24-hour periodicity. These paradoxical age oscillations can be attributed to variations in blood cell type composition and epigenomes, both of which demonstrate circadian rhythmicity. This discovery emphasizes the significance of factoring-in the time of day to obtain accurate estimates of epigenetic age.