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Sequencing-based assays (Page 103)
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GSE141931: Mycobacterium tuberculosis is protected from NADPH oxidase and LC3-associated phagocytosis by the LCP protein CpsA
Mycobacterium tuberculosissuccess as a pathogen comes from itsability to evade degradation by macrop...
GSE139336: Prospective isolation of radiation induced erythroid stress progenitors reveals unique transcriptomic and epigenetic signaturesenabling increased erythroid output
Massive expansion of erythroid progenitor cells is essential for surviving anemic stress. Research...
GSE131753: Transcriptomes of human trophoblast cell lines
We report the transcriptomes of human choriocarcinoma cell lines JEG3 and BeWo in order to provide i...
GSE151260: RNA-seq analysis of the kidneys from WT and Tet2-/- mice
To investigate the effect of Tet2 deficiency on the gene expression in mouse kidney tissues under ba...
GSE141599: Autism-misregulated eIF4G microexons control synaptic translation and higher-order cognitive functions [Ribo-Seq]
Microexons represent the most highly conserved class of alternative splicing, yet their functions ar...
GSE141923: Transcriptome analysis of brain endothelial cells from adult EC-specific Glut1 knock-out mice as compared to wild type controls
To explore the mechanisms through which GLUT1 controls EC function, we compared transcriptomic alter...
GSE142511: Next Generation Sequencing Facilitates Quantitative Analysis of MicroRNA-148a Inhibited Transcriptomes
Purpose: MicroRNA-148a regulates the differentiation of dendritic cells. The goals of this study are...
GSE134132: Attenuated epigenetic suppression of muscle stem cell necroptosis is required for efficient regeneration of dystrophic muscle [RNA-seq 3]
We performed a thorough study to analyze the epigenetic regulation of genes enabling programmed cell...
GSE141601: HDAC inhibition ameliorates cone survival in retinitis pigmentosa mice
Cone photoreceptor cell death in inherited retinal diseases, such as Retinitis Pigmentosa (RP), lead...
GSE141899: Long-access cocaine intravenous self-administration; transcriptional profiling of medium spiny neurons in the dorsal striatum of Drd2-TRAP (CP101) mice
TRAP translational profiling is a method that allows investigators to genetically characterize speci...
GSE144258: MLD Project RNAseq
PC9 cells (untreated or treated with 4D combo) were harvested (in trizol) 48h or 72h after 4D combo ...
GSE136311: Gene expression data of colon tissues derived from DSS-ttreated Uhrf1fl/flLyz2-Cre and WT mice
To identify the idea that deficiency of Uhrf1 in macrophages aggravated the intestinal inflammation,...
GSE135898: Temporal profiles of gene expression in Cry1/2 KO, Bmal1 KO under night restricted feeding and ad libitum feeding regimen
The circadian clock and rhythmic food intake are both important regulators of rhythmic gene expressi...
GSE134736: miR-26 suppresses adipocyte progenitor differentiation and fat production by targeting Fbxl19
Purpose: Fat storage in adult mammals is a highly regulated process that involves the mobilization o...
GSE145879: Truncation of mutant huntingtin in knock-in mice via CRISPR-Cas9 uncovers exon1 huntingtin as a key pathogenic form
It remains unknown how polyglutamine expansion in widely expressed proteins can cause selective neur...
GSE143915: Transcriptomic and Proteomic Signatures of Stemness and Differentiation in the Colon Crypt
Abstract: The intestinal epithelium is replaced weekly by non-quiescent stem cells with kinetics tha...
GSE148590: Transcriptomic analysis of airway macrophages from a murine experimental allergic airway disease model
Airway macrophages (AMs) are the most abundant leukocytes in the healthy airway lumen and have a hig...
GSE141571: Dual Antimicrobial and Anti-inflammatory Activity of a Nitric Oxide-releasing Topical Medication in Atopic Dermatitis
A clinical trial assessed the cutaneous immune response and short-term efficacy, safety, and tolerab...
GSE152382: Expression profiles in multiple tissues of WT and Nrf2-knockout mouse under space filght
To elucidate roles that Nrf2 plays in regulating adaptive responses to the space stress, one month-l...
GSE154927: Phenotypic plasticity and partial EMT underlie local invasion and distant metastasis in colon cancer (Bulk RNA-Seq)
Phenotypic plasticity and partial EMT underlie local invasion and distant metastasis in colon cancer...
GSE147704: Comparative Transcriptome Analysis of Endemic and Epidemic Kaposis Sarcoma (KS) Lesions and the Secondary Role of HIV-1 in KS Pathogenesis
In sub-Saharan Africa, endemic Kaposis sarcoma (EnKS) is still prevalent despite high incidence of e...
GSE140274: Dietary glutamine supplementation suppresses epigenetically-activated oncogenic pathways to inhibit melanoma tumour growth
Tumour cells adapt to nutrient deprivation in vivo, yet strategies targeting the nutrient poor micro...
GSE145692: knockout of EZH2 inhibits the tumorigenicity of human ovarian cancers cells SKOV3 by targeting steroid biosynthesis
Ovarian cancer has the highest mortality in gynecologic cancers and most patients are diagnosed in a...
GSE151245: Single-cell analysis of mouse plasmacytoid dendritic cells (pDCs) unravels their activation trajectory and their molecular regulation in vivo during a viral infection [FB5P-seq_kinetic]
The aim of the project is to characterize the heterogeneity of murine plasmacytoid dendritic cells (...
GSE141570: A Phase 1b Randomized Single-Center Trial of Topical Cerdulatinib (DMVT-502) in Patients with Mild-to-Moderate Atopic Dermatitis
This phase 1b, single-center, double-blind study evaluated safety, efficacy, and effect on molecular...
GSE134779: Transcriptomic analysis of Tregs from RelB-dDC mice
We report here the effect of RelB ablation in CD11c+ cells on the Treg compartment accross various o...
GSE140226 (mouse): Dexamethasone inhibits respiratory syncytial virus-driven mucus production while increasing viral replication without altering antiviral interferon signaling
Purpose: To understand how dexamethasone has beneficial effects on reducing mucus production but inh...
GSE141612: The transcriptional repressor Blimp-1/Prdm1 controls the maternal decidual response during pregnancy [RNA-seq]
Transcriptional profiling of E5.5 and E6.5 wild type and Blimp1 mutant decidua was performed using R...
GSE147833: The miRNA-mRNA Interactome of murine iPSC-derived Chondrocytes in Response to Inflammatory Cytokines
The goal of this study was to understand the mechanisms of miRNA regulation of the transcriptome of ...
GSE152250 (mouse): Metabolic dysfunction is integral to TGFb signaling and tissue fibrosis
Fibrosis, or the accumulation of extracellular matrix, causes loss of organ function and is a common...
GSE143482: Comparison of the LIGHT and TGF-B1 induced transcriptomes in esophageal FBL
To understand the transcriptional responses induced by LIGHT in esophageal fibroblasts and compare t...
GSE149184: Novel Inhibitors of the Histone-Methyltransferase DOT1L Show Potent Antileukemic Activity in Patient-derived Xenografts (RNA-seq dataset)
Using 3-end RNA-seq followed by digital gene expression analyses we assessed genes that change expre...
GSE141595: Identification of osteoclast coupling factors in humans reveals links between bone remodeling and energy metabolism I
Purpose: Identification of osteoclast derived coupling factors using Denosumab as a biological prob...
GSE143293: Histone 1 deficiency drives lymphomagenesis through disruption of 3D chromatin architecture
Linker histone H1 proteins bind to nucleosomes and cause chromatin compaction, although little is kn...
GSE140266: -Ketoglutarate attenuates Wnt signaling and drives differentiation in colorectal cancer [RNA-seq I]
Genetic-driven deregulation of the Wnt pathway is crucial but not sufficient for colorectal cancer (...
GSE155689: The catalytic domain of the histone methyltransferase NSD2/MMSET is required for the generation of B1 cells in mice
Humoral immunity in mammals relies on the function of two developmentally and functionally distinct...
GSE141577: Genome-wide Screening Identifies SFMBT1 as an Oncogenic Driver in Cancer with VHL Loss
von Hippel-Lindau (VHL) is a critical tumor suppres- sor in clear cell renal cell carcinomas (ccRCCs...
GSE133069: Mechanosensation of Cyclical Force by PIEZO1 is Essential for Innate Immunity
Although cells of the immune system experience force and pressure throughout their lifecycle, almost...
GSE134895: The microRNA miR-22 represses T helper 17 cell pathogenicity by targeting PTEN-regulated pathways
Multiple sclerosis is a chronic autoimmune disease driven by pathogenic Th17 cells. Here, we dissect...
GSE133070: Multiplexed gene editing in the Tmprss11 protease gene cluster reveals a unique role of HAT-like 4 in epidermal barrier formation
The physiological functions of the HAT/DESC sub-family of membrane-anchored serine proteases are poo...
GSE145002: Determining ribosome-associated mRNA in motor neurons in pre-disease onset GarsC201R mice
To determine transcriptome changes in pre-disease onset motor neurons induced by the GarsC201R mutat...
GSE141624: Long-access cocaine intravenous self-administration; transcriptional profiling of medium spiny neurons in the dorsal striatum of Drd1-TRAP (CP73) mice
TRAP translational profiling is a method that allows investigators to genetically characterize speci...
GSE134162: Extracellular matrix-inducing Sox9 orchestrates basal progenitor proliferation and gliogenesis in developing neocortex
Neocortex expansion is largely based on the proliferative capacity of basal progenitors (BPs), which...
GSE135360: Characterization of an E2f1 acetylation-deficient knock-in mouse model by RNA-Seq profiling
Objective: The E2F1 transcription factor regulates the expression of genes involved in cell prolifer...
GSE143462: Omipalisib Inhibits Esophageal Cancer Growth through PI3K/AKT/mTOR Signalling Pathway Disruption
Esophageal squamous cell carcinoma (OSCC) is a lethal digestive tract malignancy with limited effect...
GSE137073: Ketogenesis activates metabolically protective T cells in visceral adipose tissue [bulk RNA-Seq]
Ketone bodies are essential alternative fuels that allow humans to survive periods of glucose scarci...
GSE145064: Targeting RABL6A-RB1 signaling suppresses malignant peripheral nerve sheath tumors
Malignant peripheral nerve sheath tumors (MPNSTs) are deadly sarcomas that lack effective therapies....
GSE137093: Mouse transcriptome reveals novel signatures of protection and pathogenesis in human tuberculosis [lung]
Characterisation of blood and lung global transcriptional responses to Mycobacterium tuberculosis in...
GSE135362: Compared gene expression profile of Lgr5-expressing and deficient stem cells in the intestine
The Lgr5 receptor is a marker of intestinal stem cells (ISCs) that regulates Wnt/b-catenin signaling...
GSE151188: Transcriptomics analysis of gene expression in pelvic organ prolapse and control sample
Anterior vaginal prolapse, as the most common form of POP, severely affect womens physical and menta...
GSE141629: Transcriptional changes upon Jagn1 loss in LPS-stimulated plasmablasts.
We report that Jagn1-deficiency is associated with alterations in the ER of antibody-producing cells...
GSE145074: Infection of SC-beta cells with coxsackievirus B4 (CVB)
SC-beta cells were infected with CVB and collected over a time course. SOURCE: Pranitha Vangala (pra...
GSE133166: Collaborative interactions of heterogenous ribonucleoproteins contribute to transcriptional regulation of sterol metabolism
Heterogeneous nuclear ribonucleoproteins (hnRNPs) are a group of functionally versatile proteins tha...
GSE143496: Species-specific processing of long noncoding RNAs contributes to non-conserved functions in human and mouse stem cells
Subcellular RNA-seq datasets are used for genome-wide RNA localization analysis. We find different s...
GSE141610: Identification of osteoclast coupling factors in humans reveals links between bone remodeling and energy metabolism II
Purpose: Identification of osteoclast derived coupling factors using Denosumab as a biological prob...
GSE100092: The E3 ubiquitin ligase HectD1 suppresses EMT and metastasis by targeting the +TIP protein ACF7 for degradation
Cancer cells exploit the epithelial-to-mesenchymal transition (EMT) program toward metastasis. Cytos...
GSE141835: Transcriptome deviation in early neuronal stage of MBD5-Associated Neurodevelopmental Disorder (MAND)
Purpose: MBD5-Associated Neurodevelopmental Disorder (MAND) is an Autism Spectrum Disorder (ASD) dis...
GSE142535: Therapeutic IDOL reduction ameliorates amyloidosis and improves cognitive function in APP/PS1 mice
An antisense oligonucleotide (ASO) against E3 ubiquitin ligase IDOL in the brain significantly decre...
GSE136253: Rbfox1 up-regulation impairs BDNF-dependent hippocampal LTP by dysregulating TrkB isoform expression levels.
Brain Derived Neurotrophic Factor (BDNF) is a potent modulator of brain synaptic plasticity. Signali...
GSE141605: ZBED2 is an antagonist of Interferon Regulatory Factor 1 and modifies cell identity in pancreatic cancer (RNA-seq)
Lineage plasticity is a prominent feature of pancreatic ductal adenocarcinoma (PDA) cells, which can...
GSE145755: RNA-Seq analysis to compare immature myeloid cells from PARP1CKO and PARP2CKO mice with their corresponding littermate controls
We compared expression profiles of immature myeloid cells from PARP1CKO and PARP2CKO mice with their...
GSE142057: Transcriptional profiling of neurons in the hypothalamus and midbrain of an Slc17a6-TRAP (JX883) mouse line
TRAP translational profiling is a method that allows investigators to genetically characterize speci...
GSE134780: BubR1 allelic effects drive phenotypic heterogeneity in MVA progeria syndrome [10 month old RNA-seq]
Mosaic-variegated aneuploidy (MVA) syndrome is a rare childhood disorder characterized by biallelic ...
GSE144234: A SPEN Complex Serves as a Scaffold to Coordinate Multiple Epigenetic Regulatory Mechanisms in Breast Cancer Stem Cells
There is substantial evidence that many cancers, including human breast cancer are hierarchically or...
GSE141924: Transcriptome analysis of brain endothelial cells from EC-specific Glut1 knock-out pups (P6) as compared to wild type controls
To explore the mechanisms through which GLUT1 controls EC function, we compared transcriptomic alter...
GSE141625: Gene expression profile of gastric organoids p53 KO and KD
Gastric organoids were manipulated to knockout p53 SOURCE: Chunyang Bao (cy.bao@outlook.com) - Dana...
GSE148297: RNA-sequencing and Exome-sequencing analysis of ferroptosis-resistant 786-O GPX4-null carcinoma cells following in vivo selection
We have used in vivo selection to isolate GPX4 knockout 786-O cells that have evaded ferroptosis in ...
GSE143499: GATA6-AS1 Regulates GATA6 Expression to Modulates Human Endoderm Differentiation
Transcriptome analysis has uncovered a series of long noncoding RNAs (lncRNAs) transcribed during ce...
GSE141636: Entrectinib Resistance in a Neuroblastoma Xenograft Model
TrkB with its ligand, brain-derived neurotrophic factor (BDNF), are overexpressed in the majority of...
GSE145807: Transcriptome profile of HCT 116p53-/- and HCT 116p53-/- RPL3 KO during Actinomycin (Act D) treatment
To analyse gene expression differences between HCT 116p53-/- and HCT 116p53-/- RPL3 KO and/or during...
GSE148342: EXP_139_AC_ranscriptional changes observed in 94T778 cells subjected to different pharmacologic pressures.
94T778 cells were exposed to nutlin-3a, palbociclib and tunicamycin. Cells were harvested during the...
GSE143473: Non-Canonical Targets of HIF1a Impair Oligodendrocyte Progenitor Cell Function [RNA-Seq]
Mammalian cells respond to insufficient oxygen through transcriptional regulators called hypoxia-ind...
GSE133184: Cell-Specific Image-guided Transcriptomics of Ischemic Acute Kidney Injury
The highly heterogeneous nature of the kidney's tubular epithelium has made it challenging to identi...
GSE142050: Genome-wide maps of p53 binding sites in human embryonic stem cell H9 derived trilineage.
To determine the roles of IFI16-p53 interaction during H9-trilineage specification, we performed ChI...
GSE152412: Synthetic immunomodulation with a CRISPR super-repressor in vivo
In this study we introduce an enhanced CRISPR-based transcriptional repressor to reprogram immune ho...
GSE134756: Next Generation Sequencing Facilitates Quantitative Analysis of Wild Type and Tbx1-nmf219/nmf219 inner ear Transcriptomes
Purpose: The goal of this study is to compare the expression profile of wild type and Tbx1-nmf219/nm...
GSE143504: Batf3 programs CD8 T cell memory
Anti-viral CD8 T cell responses are characterized by an initial activation/priming of T lymphocytes ...
GSE140366: Robust partitioning of microRNA targets from downstream regulatory changes [Ribo-seq]
MicroRNAs function is defined by the targets it regulates. Despite miRNAs crucial role in various ce...
GSE152309: CircURI1 interacts with hnRNPM to inhibit metastasis by modulating alternative splicing in gastric cancer
To identify GC-related RNAs, we used five GC patients fresh tumor tissues and paired adjacent non-tu...
GSE141910: RNA sequencing of the left ventricle from non-failing donors and heart failure samples from the MAGNet consortium
The Myocardial Applied Genomics Network (MAGNet; www.med.upenn.edu/magnet), collects and banks human...
GSE144035: Loss of Ikaros promotes oncogene independence in a model of Lmo2-induced T-cell acute lymphoblastic leukemia
LMO2 is an oncogenic transcription factor that is frequently overexpressed due to chromosomal abnorm...
GSE133195: RNA-Seq analysis of wild-type and Hdac3-null E16.5 neurospheres and P0 cerebral cortex
Intellectual disability affects 2-3% of the general population. Related to the nature vs nurture hyp...
GSE147784: Fused in sarcoma regulates DNA replication timing and progression
Fused in sarcoma (FUS) encodes a low complexity RNA-binding protein with diverse roles in transcript...
GSE147635: Schwann cell plasticity regulates neuroblastic tumor cell differentiation
The remarkable plasticity of Schwann cells (SCs) is essential for nerve regeneration but also contri...
GSE147816: Transcriptomic maps of pharmacological LSD1 inhibition in MCC [SLAMseq]
Merkel cell carcinoma (MCC) is a highly aggressive, neuroendocrine skin cancer that lacks actionable...
GSE138245: Loss of bhlha9 impairs thermotaxis and formalin-evoked pain in a sexually dimorphic manner
This RNA-Seq experiment aims at unraveling the sets of genes that may be deregulated in a specific s...
GSE136723: Chronic stress induces activity, synaptic and transcriptional remodeling of the lateral habenula associated with deficits in motivated behaviors
Chronic stress (CMS) affects many brain functions and is a major risk factor for the development of ...
GSE143479: Identification of alcohol-induced transcriptional changes in human esophageal epithelial cells via RNA-Seq
The current study is focused on elucidating the effect of acute alcohol challenge on esophageal epit...
GSE141646: Transcriptome analysis of ankylosing spondylitis patients before and after TNF- inhibitor therapy reveals the pathways affected
mononuclear cells from AS patients pre and post treatment. We found 656 differentially expressed gen...
GSE144032 (mouse): m6A profiling of early, adolescent, aged and Alzheimer brains
m6A-seq was performed on 4 brain regions (cortex, cerebellum, hypothalmus and hippocampus) of 2 week...
GSE147664: mRNA-seq of ARID1B KO and ARID1A/1B DKO livers
ARID1B KO in liver leads to minimal gene expression changes, whereas ARID1A/1B DKO leads to global g...
GSE142056: Transcriptional profiling of neurons located in the left vs right side of the medial habenula in Chat-TRAP (DW167) BAC transgenic mice
TRAP translational profiling is a method that allows investigators to genetically characterize speci...
GSE147528: Molecular characterization of selectively vulnerable neurons in Alzheimers Disease
Alzheimers disease (AD) is characterized by the selective vulnerability of specific neuronal populat...
GSE134206: Runx/CBF transcription factor complexes regulate Ccl5 expression through two novel enhancers to enhance tumor immunity [dataset 3]
CCL5 (also known as RANTES) was originally known to be important to recruit memory T cells to infect...
GSE149181: A novel P2X2-dependent purinergic mechanism of enteric gliosis in intestinal inflammation
surgery samples of patients at early and late timepoints of a pancreatectomy SOURCE: Reiner Schneide...
GSE154126: Single cell transcriptomics of human islet ontogeny defines the molecular basis of beta cell dedifferentiation in T2D
Dedifferentiation of pancreatic beta cells may reduce islet function in type 2 diabetes (T2D). Howev...
GSE144061: Transcriptomics of FGF6-stimulated mouse brown preadipocytes
Uncoupling protein-1 (UCP1) plays a central role in energy dissipation in brown adipose tissue (BAT)...
GSE139347: RNA-seq to measure mRNA expression in normal lung tissues, KRasG12D; p53-null(KP)-driven and Eml4-Alk(EA)-driven lung adenocarcinomas
The identification of miRNA targets by Ago2-CLIP methods has provided major insights into the biolog...
GSE141991: m6A independent genome-wide METTL3 and METTL14 redistribution drives senescence-associated secretory phenotype [RNA-seq]
Methyltransferase-like 3 (METTL3) and 14 (METTL14) are core subunits of the methyltransferase comple...
GSE141656: Transcriptomes of human trained macrophages before and after Mtb exposure
Trained Immunity (TRIM) is the phenomenon whereby innate immune cells such as monocytes or macrophag...