GEO DataSets

(Submitter supplied) Light is the source of energy for photosynthetic organisms such as plants. Due to the great significance of light in the regulation of development, plants possess a sophisticated signaling network that controls light response including a massive gene expression reprogramming as well as post-transcriptional mechanisms such as alternative splicing. LEFKOTHEA is a nucleus-encoded splicing factor found in both the nucleus and chloroplast and its nuclear compartmentalization ensures the early embryonic development in Arabidopsis. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by high throughput sequencing

Platform:

GPL28992

35 Samples

Download data: TXT

(Submitter supplied) To determine the changes in liver immune cells upon hepatic Bicd2 deficiency, we performed scRNA-seq to analyze the hepatic immune microenvironment in Alb-WT Bicd2fl/fl and Alb-Cre Bicd2fl/fl mice subjected to S-100 induced AIH model.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24247

2 Samples

Download data: MTX, TSV

(Submitter supplied) RNA-seq was performed on liver tissues from Alb-WT Bicd2fl/fl and Alb-Cre Bicd2fl/fl mice subjected to S-100 induced AIH model. The study aims to characterize gene expression changes associated with hepatic inflammatory responses in the absence of BICD2.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24247

8 Samples

Download data: CSV

(Submitter supplied) Cholera is a deadly diarrheal disease that affects millions of people globally. Although V. cholerae, the causative agent of the disease, has been extensively studied in isolation, it was relatively recently that scientists started investigating its interactions with the gut microbiota. Our group and others previously showed that microbiota-derived metabolites significantly influence V. cholerae behavior. more...

Organism:

Vibrio cholerae C6706

Type:

Expression profiling by high throughput sequencing

Platform:

GPL35328

6 Samples

Download data: XLSX

(Submitter supplied) Non-obstructive azoospermia (NOA) is a critical subtype of male infertility associated with inflammation. However, the molecular mechanisms underlying this phenomenon remain poorly understood. This study investigated the role of the inflammation-activated long non-coding RNA SNHG1 in NOA pathogenesis. Using lipopolysaccharide (LPS)-induced orchitis mouse models and spermatogonium cell lines (GC-1 spg and TCAM-2), we observed that both SNHG1 and the transcription factor SP1 were significantly upregulated, correlating with spermatogonium proliferation and loss of stemness. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24247

6 Samples

Download data: TXT

(Submitter supplied) Atopic dermatitis is a severe skin disorder. Keratinocytes, as the epidermal barrier cells, are an important component in maintaining the skin barrier function. The role of SOCS6 in keratinocytes is still unclear. In this dataset, we extracted keratinocytes from the foreskin tissue of healthy individuals and conducted mRNA sequencing data for SOCS6 knockdown (KD) and overexpression (OE).

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24676

12 Samples

Download data

(Submitter supplied) Atopic dermatitis is one of the severe skin diseases. Keratinocytes, as the epidermal barrier cells, are an important component for maintaining the skin barrier function. In this dataset, we have included the m⁶A methylation RNA data obtained from normal human keratinocytes (N group) and keratinocytes from patients with atopic dermatitis (AD group).

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL25759

6 Samples

Download data: TXT

(Submitter supplied) Invasion is a prerequisite for metastasis formation. During tumor development, type I collagen overexpression increases tumor microenvironment stiffness, facilitating cancer cell dissemination. During breast cancer cell migration in 2D and 3D matrices, we observed membrane debris left behind, attached to the collagen fibrils, along the migration path. We named these structures collagen-tracks. Their formation is stimulated by the interaction between the extracellular matrix (ECM) and matrix receptors, such as the discoidin-domain receptor 1 (DDR1). more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL34281

6 Samples

Download data: CSV

(Submitter supplied) To investigate the sequence editing-specific effects on Nrf1 functions, we utilized glycan-less Nrf1 mutants, 9NA and 9ND, in which all nine of the putative N-glycosylation sites (N-X-S/T; asparagine (N) serine (S), threonine (T), and X is any amino acid except proline) were replaced with alanine (A) and aspartic acid (D), respectively. To comprehensively understand the effects of Nrf1 sequence editing on the transcriptome, microarray analysis was performed on NGLY1-KO HeLa cells stably expressing 9NA and 9ND.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL10332

9 Samples

Download data: TXT

(Submitter supplied) The polyadenylation of mRNA is pivotal for mRNA stability and efficient mRNA translation. The length of poly(A) tail is dynamically changed under various physiological conditions; however, the functions and mechanisms of aberrant poly(A) length control in cancers remain poorly understood. Here we uncovered the aberrant lengthening of poly(A) tail and particularly upregulated expression of poly(A) polymerase alpha (PAPOLA) in acute myeloid leukemia (AML), and the elevated PAPOLA expression significantly correlated with unfavorable AML outcomes. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL28330

6 Samples

Download data: TXT

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

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing; Other

Platforms:

GPL23227 GPL20301 GPL26180

11 Samples

Download data

(Submitter supplied) The polyadenylation of mRNA is pivotal for mRNA stability and efficient mRNA translation. The length of poly(A) tail is dynamically changed under various physiological conditions; however, the functions and mechanisms of aberrant poly(A) length control in cancers remain poorly understood. Here we uncovered the aberrant lengthening of poly(A) tail and particularly upregulated expression of poly(A) polymerase alpha (PAPOLA) in acute myeloid leukemia (AML), and the elevated PAPOLA expression significantly correlated with unfavorable AML outcomes. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL26180

3 Samples

Download data: TXT

(Submitter supplied) The polyadenylation of mRNA is pivotal for mRNA stability and efficient mRNA translation. The length of poly(A) tail is dynamically changed under various physiological conditions; however, the functions and mechanisms of aberrant poly(A) length control in cancers remain poorly understood. Here we uncovered the aberrant lengthening of poly(A) tail and particularly upregulated expression of poly(A) polymerase alpha (PAPOLA) in acute myeloid leukemia (AML), and the elevated PAPOLA expression significantly correlated with unfavorable AML outcomes. more...

Organism:

Homo sapiens

Type:

Other

Platform:

GPL20301

2 Samples

Download data: TXT

(Submitter supplied) The polyadenylation of mRNA is pivotal for mRNA stability and efficient mRNA translation. The length of poly(A) tail is dynamically changed under various physiological conditions; however, the functions and mechanisms of aberrant poly(A) length control in cancers remain poorly understood. Here we uncovered the aberrant lengthening of poly(A) tail and particularly upregulated expression of poly(A) polymerase alpha (PAPOLA) in acute myeloid leukemia (AML), and the elevated PAPOLA expression significantly correlated with unfavorable AML outcomes. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23227

6 Samples

Download data: TXT

(Submitter supplied) To characterize the spatial characteristics of the lung tissue of OP patient, we collected lung samples for Visium CytAssist from one patient with OP

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing; Other

Platform:

GPL24676

1 Sample

Download data: MTX, TIFF, TSV

(Submitter supplied) Cyclic GMP–AMP synthase (cGAS) and its downstream effector, stimulator of interferon genes (STING), form a central cytosolic DNA–sensing pathway that drives innate immune activation and pro-inflammatory cytokine production. We previously reported that cGAS is upregulated in Huntington disease (HD) cellular models, where it modulates autophagy and inflammatory signaling. However, its in vivo contribution to HD pathogenesis has remained unresolved. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24247

12 Samples

Download data: TXT

(Submitter supplied) BACKGROUND: Chimeric antigen receptor (CAR) T cells have achieved remarkable clinical success. However, up to 50% of CAR T cell-treated leukemia patients relapse and long-term survivor data indicate that CART cell persistence is key to enforcing relapse-free survival. Unfortunately, ex vivo expansion protocols often drive metabolic and functional exhaustion, reducing in vivo efficacy. Preclinical models have demonstrated that redirecting metabolism can improve in vivo T cell function. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL30173

12 Samples

Download data: CSV

(Submitter supplied) Combination therapies of chemotherapy and immune checkpoint inhibitors (ICIs) have failed to improve survival in pancreatic ductal adenocarcinoma (PDAC), except in rare MSI-H cases, despite their success in other solid tumors. Most prior studies have been conducted in advanced disease. Here, we present clinical, pathologic, and translational results from a phase 1b/2 investigator-initiated study evaluating neoadjuvant modified FOLFIRINOX (mFOLFIRINOX, mFFX) plus nivolumab in patients with borderline-resectable (BR) PDAC. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24676

37 Samples

Download data: TXT

(Submitter supplied) Type I and III interferons (IFNs) are among the first lines of defense against viral infections, yet they are generally only produced by a tiny fraction of infected cells. Here, we show that variability in tonic cell signaling significantly influences cells’ ability to produce IFN upon stimulation with the synthetic double-stranded RNA, polyinosinic:polycytidylic acid (pIC). Using single-cell approaches, we found that members of the activator protein (AP)-1 transcription factor were implicated in IFNL1 expression predisposition. more...

Organism:

Homo sapiens

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL34284

24 Samples

Download data: BW, TXT

(Submitter supplied) Type I and III interferons (IFNs) are among the first lines of defense against viral infections, yet they are generally only produced by a tiny fraction of infected cells. Here, we show that variability in tonic cell signaling significantly influences cells’ ability to produce IFN upon stimulation with the synthetic double-stranded RNA, polyinosinic:polycytidylic acid (pIC). Using single-cell approaches, we found that members of the activator protein (AP)-1 transcription factor were implicated in IFNL1 expression predisposition. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL34284

3 Samples

Download data: CSV, H5, TXT