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Sequencing-based assays page 115
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GSE144255: gdT cells and adipocyte IL-17RC control fat innervation and thermogenesis
The sympathetic nervous system innervates peripheral organs to regulate their function and maintain ...
GSE141877: Maternal DNMT3A-dependent de novo methylation of the zygotic paternal genome inhibits gene expression in the early embryo
De novo DNA methylation (DNAme) during mammalian spermatogenesis yields a densely methylated genome,...
GSE144278: Cas12a base editors induce efficient and specific editing with low DNA damage response (RNA sequencing)
The advent of base editors (BEs) holds a promising potential in correcting pathogenic-related point ...
GSE150825: Single-cell sequencing of infiltrating stromal cells in nasopharyngral carcinoma
The tumor microenvironment (TME) of nasopharyngeal carcinoma (NPC) harbors a heterogeneous and dynam...
GSE153651: m6A directs the demethylation of histone H3K9me2 co-transcriptionall
Here we show the repressive H3K9me2 mark is specifically removed by the induction of m6A-modified tr...
GSE152325: Wnt/PCP-primed intestinal stem cells directly differentiate into enteroendocrine or Paneth cells
We performed 7 single-cell RNAseq experiments to identify progenitor cell populations in the small i...
GSE150844: Integrator Recruits Protein Phosphatase 2A to Prevent Pause Release and Enable Transcription Termination
Efficient release of promoter-proximally paused Pol II into productive elongation is essential for g...
GSE150991: Resistance to PD1 blockade in the absence of metalloprotease-mediated LAG3 shedding
Mechanisms of resistance to cancer immunotherapy remain poorly understood. Lymphocyte Activation Gen...
GSE151593: RNAseq of splenic dendritic cells from 1 week-old and adult Clec9a-Cre Rosa-Tomato mice
We use bulk RNA sequencing of sorted cells to characterize the gene expression profiles of splenic T...
GSE151414: Immune phenotyping of diverse syngeneic murine brain tumors identifies immunologically distinct types
Whole tissue RNA-seq analysis of end-stage brain tumor tissue collected from 4 different syngenic mu...
GSE151310: Single-cell transcriptomic sequencing of BCMA CAR-T cells during CAR-T therapy in refractory primary plasma cell leukemia
Chimeric antigen receptor T-cell (CAR-T) therapy has revolutionized the clinical treatment of hemato...
GSE145311: Glutathione restricts serine metabolism to preserve regulatory T cell function
Regulatory T cells (Tregs) maintain immune homeostasis and prevent autoimmunity. Serine can stimulat...
GSE149753: Evaluation of the effects of low nanomolar bisphenol A-like compounds levels on early human embryonic development and lipid metabolism with human embryonic stem cell in vitro differentiation models
The widely used chemical bisphenol A (BPA) has been associated with several health effects. In recen...
GSE141927: Transcriptional profile of PDGFRa+ Sca-1+ and Sca-1- cells at steady state and at 7, 14 and 28 days post LAD ligation
The cardiac stroma contains multipotent mesenchymal progenitors. However, lineage relationships with...
GSE143512: Early programming of CD8+ T cell response by the orphan nuclear receptor NR4A3 [RNA-Seq]
We analysed the transcriptomic gene signature of day 3 CD8+ T cell effectors in the absence of NR4A3...
GSE151571: RNA-sequencing of mice 24 hours following acute p53 activation due to Mdm2-loss (Mdm2FM/- Cag-CreERTg (FMTg)) compared to mice that retain Mdm2 (Mdm2+/- Cag-CreERTg (Tg))
FMTg (Mdm2FM/- Cag-CreERTg) and Tg (Mdm2+/- Cag-CreERTg) mice were administered 6mg/40g of Tamoxifen...
GSE149733: Structural interaction between DISC1 and ATF4 underlying transcriptional and synaptic dysregulation in an iPSC model of mental disorders
Analysis of gene expression alteration in iPSC-derived cortical neurons with ATF4 overexpression SOU...
GSE150701: Specific ectodermal enhancers control the expression of Hoxc genes in developing mammalian teguments [RNA-seq]
Vertebrate Hox genes are key players in the establishment of structures during the development of th...
GSE148837: Single-cell profiling reveals Colonic CD8 Topography in IBD
Aims: Single-cell transcriptomic analysis of CD8 T cells in colonic tissue in Health and Ulcerative ...
GSE151435: Effects of endogenous GDF11 on the odontogenic differentiation of dental pulp stem cells
Knockdown of endogenous GDF11 downregulated the odontogenic differentiation of human dental pulp ste...
GSE145653: Cooperative genetic networks drive a mammalian cell state transition
In the mammalian embryo epiblast cells must exit their nave state and differentiate to acquire forma...
GSE155518: SARS-CoV-2 infection of primary human lung epithelium for COVID-19 modeling and drug discovery
Coronavirus disease 2019 (COVID-19) is the latest respiratory pandemic resulting from zoonotic trans...
GSE156754: SARS-CoV2 infection of iPSC-derived cardiac cells predicts novel cytopathic features in COVID-19 patients
Mounting clinical evidence indicates severe pathological consequences from COVID-19 in the heart. He...
GSE76507: G9a-Mediated Methylation of ER Links the PHF20/MOF Histone Acetyltransferase Complex to Hormonal Gene Expression
The euchromatin histone methyltransferase 2 (EHMT2, aka G9a) methylates histone H3K9 to repress gene...
GSE151628: Hand2-Induced Preservation of Sympathetic Neurons Prevents Sarcopenia with Aging
We examined age-dependent expression of the heart and neural crest derivative 2(Hand2), a critical t...
GSE148796: Identification of pathogenic TRAIL-expressing innate immune cells during HIV-1 infection in humanized mice by scRNA-seq
We employed the single-cell RNA sequencing (scRNA-seq) technology to study HIV-induced transcriptomi...
GSE143543: STARR-seq identifies chromatin masked enhancers in pluripotent mouse embryonic stem cells [RNA-Seq]
Enhancers are distal regulators of gene expression that shape cell identity and regulate cell fate t...
GSE152781: The role of topical containing camellia sinensis in the cosmetic management of skin scars in healthy human volunteers: part 2
Epigallocatechin-3-gallate (EGCG), a polyphenol, influences cutaneous wound healing due to its anti-...
GSE152703: Transcript profiling of putative MTF-1 activating chemicals in wild-type and MTF-1-null MCF-7 cells
In future high-throughput transcriptomic studies, we propose that the use of cell lines nullizygous ...
GSE153657: Multi-omic comparison of Alzheimers variants in human ESC-derived microglia reveals convergence at APOE [RNA-seq]
Variations in many genes linked to sporadic Alzheimers disease (AD), show abundant expression in mic...
GSE148802: Pharmacologic IRE1/XBP1s Activation Confers Targeted ER Proteostasis Reprogramming
Activation of the IRE1/XBP1s signaling arm of the unfolded protein response (UPR) is a promising str...
GSE145680: The secreted protease Adamts18 links mammary epithelial hormone action to extracellular matrix changes and stem cell niche function
Estrogens and progesterone control mammary gland development and breast carcinogenesis via their cog...
GSE144087: Sustained sensing of commensal-derived products directs polarized immune cell positioning within the liver to optimize host defense
The liver is located at the interface between the intestinal portal vasculature and the general circ...
GSE143959: Defining a critical Nanog enhancer using chromatin-focused approaches identifies RNAPII recruitment as required for expression [-5delRNASeq]
Transcriptional enhancers have been defined by their ability to operate independent of distance and ...
GSE151558: Sex-Specific Differences of Humoral Immunity and Transcriptome Diversification in Older Adults Vaccinated with Inactivated Quadrivalent Influenza Vaccines
Clinical data showed sex variability in the immune response to influenza vaccination, this study aim...
GSE155571: SCF -licensed induction of a mucosal mast cell-like transcriptional program by TGF-b
This study evaluates the effects of 72h stimulus with stem cell factor (SCF) (100 ng/mL) and TGF-b (...
GSE148816: Cell-intrinsic differences between human tracheal epithelial cells from children and adults [FACS-sorted basal cells]
The airway epithelium is a key protective barrier whose integrity is preserved by the self-renewal a...
GSE142513: Effects of a gastrin receptor antagonist (NTZ, previously named YF) on the gastric corpus mucosa of HKATPase betasubunit knockout (KO) mice
Purpose: the effects of a gastrin receptor antagonist has been studies in patients with gastrin neur...
GSE155541: mRNA-seq in human 293T HEK cells in the presence (shScr) or absence of HSF1 (shHSF1) or CTCF (shCTCF).
Profiling the mRNA content in 293T human embryonic kidney (HEK) cells in the presence and absence of...
GSE151854: Next Generation Sequencing to analyse regulators of constitutive VWF secretion
Constitutive VWF secretion can be increased by a range of factors; changes in VWF expression, levels...
GSE141933: P220-1: CDK8 in Treg differentiation
Immune health requires innate and adaptive immune cells to engage precisely balanced pro- and anti-i...
GSE152667: CARM1 inhibition reduces histone acetyltransferase activity causing synthetic lethality in CREBBP/EP300 mutated lymphomas [RNA-seq_Toledo]
Somatic mutations affecting CREBBP and EP300 are a hallmark of Diffuse Large B Cell Lymphoma (DLBCL)...
GSE155576: Next Generation Sequencing analysis using splenic CD8 T cells isolated from Wild Type-OT-I (WT) and NIK -CD4Cre-OT-I (KO) mice
Metabolic reprograming towards aerobic glycolysis is a pivotal mechanism that shapes immune response...
GSE151783: Transcriptomic analysis of transforming growth factor beta (TGF-beta)-responding SCC cells and Fc epsilon receptor I alpha (FceRIa)-positive macrophages
TGF-beta-responding SCC cells, a tumor-initiating cell population, show a unique gene expression sig...
GSE156308: exosomal ELNAT1 promotes lymphatic metastasis of bladder cancer
The crosstalk between tumor cells and LECs triggers the LN metastasis in bladder cancer (BCa), but t...
GSE150876 (mouse): Coupled single cell RNA-seq and intracellular protein activity reveals immune-suppressive role of Trem2 in cancer II
Cell function and activity is regulated through integration of signaling, epigenetic, transcriptiona...
GSE151336: Enhanced YB1/EphA2 axis signaling promotes acquired resistance to sunitinib and metastatic potential of renal cell carcinoma
VHL mutations are the most common tumorigenic lesions in clear cell renal cell carcinoma (ccRCC) and...
GSE143531: Local translation highlights novel properties of perisynaptic astrocytic processes, and is modulated by behavior involving the dorsal hippocampus
Local translation is a conserved molecular mechanism. It allows a cell with a complex shape to bypas...
GSE148861: Peripheral blood non-canonical small non-coding RNAs as novel biomarkers in lung cancer and pulmonary tuberculosis (discovery cohort)
One unmet challenge in current lung cancer diagnosis is to accurately differentiate lung cancer pati...
GSE155513: Single-cell genomics reveals a novel cell state during smooth muscle cell phenotypic switching and potential therapeutic targets for atherosclerosis in mouse and human [mouse]
Smooth muscle cells (SMC) play significant roles in atherosclerosis via phenotypic switching, a path...
GSE141684: Senescence triggers vascular remodeling and new therapeutic vulnerabilities in pancreas cancer
KRAS mutant pancreatic ductal adenocarcinoma (PDAC) is characterized by a desmoplastic response that...
GSE152379: BACH2 Establishes the Transcriptional and Epigenetic Programs of Stem-Like CD8 T cells
During chronic infection and cancer, a self-renewing CD8 T cell subset maintains long-term T-cell im...
GSE150712: Microglial remodeling of the extracellular matrix promotes synapse plasticity [Microglia]
This study defines a molecular interaction between neurons and microglia that drives experience-depe...
GSE151347: SP8 promotes an aggressive phenotype in hepatoblastoma via FGF8 activation
Purpose: Despite an overall good outcome of hepatoblastoma patients, prognosis is still poor if asso...
GSE151971: Site-specific Wnt signalling explains regional differences in bone physiology Evidence from a cross-species RNA-Seq study comparing osteocyte transcriptomes in the tibia and skull
Local site-specific differences between bones in different regions of the skeleton account for their...
GSE149175: MYC drives temporal evolution of small cell lung cancer subtypes by reprogramming neuroendocrine fate [Bulk RNA-seq of RPM and RPR2 tumors]
Distinct SCLC molecular subtypes have been defined based on expression of lineage-related transcript...
GSE144065: The zinc finger domains in U2AF26 and U2AF35 have diverse functionalities including a role in controlling translation
Recent work has associated point mutations in both zinc fingers (ZnF) of the spliceosome component U...
GSE151388: Monocyte Subsets with High Osteoclastogenic Potential and Their Epigenetic Regulation Orchestrated by IRF8 [RNA-Seq]
Currently, it is unclear if all monocyte subsets exhibit osteoclastogenic potential. Furthermore, th...
GSE151875: LCM-Seq analysis of microscopically defined human embryo HSC microenvironment
This dataset contains RNA-Seq data for cells within spatially defined subdomains of the human embryo...
GSE140551: Characterization of epigenomic and transcriptomic changes upon TGF-beta treatment in NMuMG cells [RNA-seq]
TGF cytokines have crucial roles in development, proliferation, tissue homeostasis, differentiation,...
GSE142776: Mutant ACVR1 Arrests Glial Cell Differentiation to Drive Tumorigenesis in Pediatric Gliomas
Purpose: The purpose of this study was to assess the effect of targeting the Acvr1G328V mutation to ...
GSE152836: Gene expression changes in REH following CDC42 inhibition
ARHGEF4 expression is associated with t(12;21) acute lymphoblastic leukaemia (ALL). Our study invest...
GSE150852: Large-scale analysis of human and mouse RNA-seq datasets to identify undiscovered male reproductive tract-specific genes (human)
The development of a safe and effective, reversible, non-hormonal contraceptive method for men has b...
GSE151863: Impaired estrogen signaling underlies regulatory T cell loss-of-function in the chronically-inflamed intestine
The goal of this study was to identify differences in intestinal regulatory T cell gene expression i...
GSE151850: Anatomical diversity of dermis in homeostasis and wound repair
Skin has distinct characteristics depending on the anatomical site; however, the cell and molecular ...
GSE156807: Mitochondrial Potentiation Ameliorates Age Related Heterogeneity in Hematopoietic Stem Cell Function [HSCs treated]
introduction: Ageing is associated with reduced fitness and increased myeloid bias of the hematopoie...
GSE148918: Modeling Tumor Development and Metastasis using Paired Organoids Derived from Patients with Colorectal Cancer Liver Metastases
Tumor metastasis accounts for the majority of cancer-related deaths; it is therefore important to de...
GSE151379: A human tissue screen identifies a regulator of ER secretion as a brain size determinant [RNA-Seq]
A screen in human organoids reveals IER3IP1 function SOURCE: Christopher Esk IMBA - Institute of Mol...
GSE151856: Spleen glia express common glial genes but are a unique glial subtype interposed between immune cells and sympathetic axons in the white pulp
Non-myelinating glia in visceral organs have not been well characterized. It Is likekely they have u...
GSE150949: Cycling cancer persisters arise from lineages with distinct transcriptional and metabolic programs
Non-genetic mechanisms have recently emerged as important drivers of therapy failure in cancer, wher...
GSE149207: scRNA-seq of mouse thymocyte CD4 CD8 lineage choice and differentiation
CD4 and CD8 identify helper and cytotoxic T cell lineages, and serve as co-receptors for MHC-restric...
GSE140532: Ctcf Haploinsufficiency Mediates Intron Retention in A Tissue-specific Manner
CCCTC binding-factor (CTCF) is a master regulator of gene transcription and chromatin organization w...
GSE149168: RNA-Seq of wild type and miR-574 knockout mouse hearts at baseline
Purpose: The target mRNAs of miR-574 in mouse heart are unknown. The goal of this study is to use ne...
GSE52385: Next generation sequencing of the transcriptome in MCF-7 cells with/without SRA knockdown
We employed next generation sequencing to examine whether knocking down the steroid receptor RNA act...
GSE152661: SWI/SNF inactivation in the endometrial epithelium leads to loss of epithelial integrity [12Z RNA-seq]
Although ARID1A mutations are a hallmark feature, mutations in other SWI/SNF chromatin remodeling su...
GSE140550: Characterization of epigenomic and transcriptomic changes upon TGF-beta treatment in NMuMG cells [ChromRNA-seq]
TGF cytokines have crucial roles in development, proliferation, tissue homeostasis, differentiation,...
GSE142597: Screening of miR-379 target RNAs by comparison of WT and miR-379 KO mouse primary kidney mesangial cells by using CLASH technique [RNA-Seq]
We screened for miR-379 targets in primary mesangial cells from wild-type vs. miR-379KO mice using u...
GSE143628: Modifiers and Mediators of Craniosynostosis Severity Revealed by Differential Gene Expression
Severity of craniosynostosis in humans varies widely even in patients with identical genetic mutatio...
GSE155841: Differential gene expression profile of FOLR2+ vs. FOLR2- tumor-associated macrophages
Tumor-associated macrophages (TAMs) are key components of the tumor microenvironment (TME) which can...
GSE152722: Next Generation Sequencing of mouse melanoma tumors generated with a repressible BRAF construct
Purpose: The goals of this study are to compare NGS-derived transciptomes from engineered mouse tumo...
GSE155563: Functions of calcineurin-NFAT signaling pathway in human embryonic stem cells
Calcineurin-NFAT signaling is associated with a wide range of biological processes and diseases. Our...
GSE140567: RNA-Seq Analysis of transcriptome network effects of dual-trait selection for ethanol preference and withdrawal using SOT and NOT genetic models
Purpose: Genetic factors significantly affect alcohol consumption and vulnerability to withdrawal. S...
GSE153659: Next Generation Sequencing Facilitates Quantitative Analysis of Papillary Thyroid Carcinoma
Our study aims to investigate the molecular variance of PTC in human PTC tumor sample and normal tis...
GSE140610: Dichotomous Engagement of HDAC3 Catalytic Activity Governs Inflammatory Responses [RNA-Seq]
Histone deacetylase 3 (HDAC3) is unique among the HDAC superfamily of chromatin modifiers that silen...
GSE153738: Gene expression differences among human natural killer cells and recombinant expression hosts
This study was designed to identify gene expression differences in activatable cells used to test th...
GSE157088: Regeneration Defects in Livers of Mice With Mutations in Yap and Taz Caused by Bile Duct Disruption and Cholestasis
Background and aims: The Hippo pathway and its downstream effectors YAP and TAZ (YAP/TAZ) are hera...
GSE140642: RNA metabolic rates profiling in Fragile X neurons
Fragile X syndrome (FXS) is caused by inactivation of FMR1 gene and loss of its encoded product the ...
GSE147044: Metabolism of primary colorectal tumor facilitate MDSC infiltration in pre-metastatic liver
Through an integrated transcriptome analysis of orthotopic colorectal cancer tumor-bearing mice and ...
GSE155941: Transcriptional profiling of senescent A549 cells
Telomere dysfunction is the most common identifiable cause of pulmonary fibrosis. Cellular senescenc...
GSE151155: Musashi1 contributes to glioblastoma development via regulation of a network of DNA replication, cell cycle, and division genes
RNA binding proteins (RBPs) function as master regulators of gene expression. Alterations in their e...
GSE152370: Therapeutic reprogramming of the intestinal stem cell state via Hippo signaling [LATS_scRNAseq]
While the Hippo transcriptional coactivator YAP is considered oncogenic in many tissues, its roles i...
GSE155364: A Wnt-induced phenotypic switch in cancer-associated fibroblasts inhibits EMT in colorectal cancer
Tumor progression is recognized as a result of an evolving crosstalk between tumor cells and their s...
GSE152866: Single-Cell RNA-seq Reveals Obesity-Induced Alterations in the BRAC1 Mutant Mammary Tumor Microenvironment
In this study, we conducted single-cell RNA sequencing (scRNA-seq) studies to investigate the impact...
GSE134197: The effects of U1 snRNA mutation in chronic lymphocytic leukemia cell lines
Despite an intensive search for non-coding cancer drivers, only a few have been discovered to date a...
GSE140678: Cardiac specific deletion of natriuretic peptide receptor A induces different myocardial expression of circular RNA and mRNA involved with metabolism in mice
Atrial natriuretic peptide (ANP) and brain natriuretic peptide (BNP) are not only important biologic...
GSE155865: Genome-wide R-loop analysis defines unique roles for DDX5, XRN2, and PRMT5 in DNA/RNA hybrid resolution
DDX5, XRN2, and PRMT5 have been shown to resolve DNA/RNA hybrids (R-loops) at RNA polymerase II tran...
GSE140681: Collagen type-V is a danger signal associated with primary graft dysfunction in lung transplantation
Primary graft dysfunction (PGD) is the leading cause of early mortality after lung transplantation. ...
GSE155564: Modelling of H3K4me3 histone modification data identifies signalling molecules that improve cell maintenance and conversion
RNA-seq data from H9 ESC, primary astrocyte and at different time-points (day 7, 14 and 21) during a...
GSE153744: RNA-seq of HEK 293T cells treated with Val-boroPro
We report the application of RNA-seq for profiling gene transcription upon treatment of dipeptidyl p...
GSE141967: Loss of Glucocorticoid Receptor Expression Mediates in Vivo Dexamethasone Resistance in T-cell Acute Lymphoblastic Leukemia
Despite decades of clinical use, mechanisms of glucocorticoid resistance are poorly understood. We t...