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Sequencing-based assays page 108
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GSE145449: The long non-coding RNA LUCAT1 is a negative feedback regulator of the Interferon Response in humans (IAV and HSV dataset)
Long non-coding RNAs (lncRNAs) are important regulators of biological processes including immune res...
GSE139033: MeCP2 links heterochromatin condensates and neurodevelopmental disease
MeCP2 (methyl CpG binding protein 2) is a key component of constitutive heterochromatin, which plays...
GSE146779: Enforced Expression of NUP98-HOXA10hd Fusion Gene in Multipotent Progenitors Support Long-term Hematopoiesis in primary mice [MP]
Allogenic hematopoietic stem cell (HSC) transplantation is widely used for treatment of blood disord...
GSE144474: Contribution of brain pericytes in blood-brain barrier formation and maintenance: A transcriptomic study of cocultured human endothelial cells derived from hematopoietic stem cells
The formation, maintenance, and repair of the blood-brain barrier (BBB) are critical for central ner...
GSE155739: DJ-1 (PARK7) affects the gut microbiome, metabolites, and development of Innate lymphoid cells (ILCs)
Purpose of this study is to identify the role of DJ-1 in the brain inflammation at moleculer level. ...
GSE137385: Nutrient regulation of liver gene expression
We have obtained RNAseq data from the livers of male C57BL/6J and BALB/c that were maintained on a l...
GSE137271: A WIZ/Cohesin/CTCF complex anchors DNA loops to define gene expression and cell identity [RNA-Seq]
Purpose: Chromatin architecture is an important regulator of gene expression, but details of how DNA...
GSE151072: Transcriptional and functional analysis of CD1c+ human dendritic cells identifies a CD163+ subset priming CD8+CD103+ T cells [Breast_iLN]
Dendritic cells (DC) are antigen presenting cells controlling T cell activation. In human, the diver...
GSE146782: The role of IL-33 on red pulp macrophage (RPM) development
This study investigated the effects of IL1RL1 deficiency on the devlopment of red pulp macrophages (...
GSE144738: Genome-wide transcriptomics identifies an early preclinical signature of prion infection
We constructed a searchable genome-wide atlas of mRNA abundance, splicing and editing alterations du...
GSE144825: Human-chimpanzee cell fusion reveals cis-regulatory evolution of neural development
Among primates, humans display a unique trajectory of development responsible for the many traits sp...
GSE154039: Embryo-derived chemokine CXCL12 enhances the pregnancy outcome via improved endometrial receptivity
Intrauterine infusion of CXCL12 has a beneficial effect on endometrial angiogenesis by recontruction...
GSE154853: RNAseq analysis of microglia isolated from treated brain slices or treated mice
Population based transcriptomic profiling was performed on microglia isolated from TNF or GMCSF trea...
GSE139430: Analysis of genome architecture during SCNT reveals a role of cohesin in impeding minor ZGA
Somatic cell nuclear transfer (SCNT) can reprogram a somatic nucleus to a totipotent state. However,...
GSE149866: High throughput sequencing of transcripts from normal and Bardet-Biedel Syndrome mouse adipose tissue after treatment with Glucosyl Ceramide Synthase inhibitor (GCSi) Genz667161
The goal of this study was to compare Next Generation mRNA Sequencing (RNA-seq) data obtained from a...
GSE144761: Targeting Germline and Tumor Associated Nucleotide Excision Repair Defects in Cancer
Genetic alterations in members of the nucleotide excision repair (NER) pathway are present in a wide...
GSE144903: Genome-wide investigation of the dynamic changes of epigenome modifications after DNA methylation editing [RNA-seq]
The aim of this study was to investigate the stability of DNA methylation, the dynamics of different...
GSE144712: ZNF143 mediates CTCF-bound promoter-enhancer loops required for murine hematopoietic stem and progenitor cell function
CCCTC binding factor (CTCF) is an important factor in the maintenance of chromatin chromatin interac...
GSE146853: Longitudinal multi-omics reveals subset-specific mechanisms underlying irritable bowel syndrome
The gut microbiome has been implicated in multiple human chronic gastrointestinal (GI) disorders. De...
GSE145003: Determining transcriptome changes in whole spinal cord of GarsdelETAQ/+ adult onset mice [18-burgess-006]
To determine transcriptome changes in spinal cord induced by the GarsdelETAQ mutation.; How mutation...
GSE154104: SARS-CoV-2 infection in the lungs of human ACE2 transgenic mice causes severe inflammation and immune cell infiltration, and compromised respiratory function
We evaluate heterozygous transgenic mice expressing human ACE2 receptor driven by the epithelial cel...
GSE151086: Transcriptional comparison of in vitro generated human dendritic cells and peripheral blood circulating dendritic cells
Classical dendritic cells (cDCs) are rare sentinel cells specialized in the regulation of adaptive i...
GSE145000: Determining ribosome-associated mRNA in motor neurons in adult GarsP278KY/+ mice [17-burgess-004]
To determine transcriptome changes in motor neurons induced by the GarsP278KY mutation.; How mutatio...
GSE147852: Physiologic RNA Targets and Refined Sequence Specificity of Coronavirus EndoU
Coronavirus EndoU inhibits double-stranded RNA (dsRNA)-activated antiviral responses; however, it is...
GSE137678: STAT5 is required for lipid breakdown and beta-adrenergic responsiveness of brown adipose tissue
Increasing energy expenditure through activation of brown adipose tissue (BAT) thermogenesis is an a...
GSE152979: Identification of 3 Endotypes In Pediatric ARDS Using Nasal Transcriptomics-Low Input
This study used nasal transcriptomic profiling of the inferior turbinate in control and pediatric AR...
GSE144770: Genome-wide analysis reveals mucociliary remodeling of the airway epithelium induced by PM2.5
Air pollution particulate matter <2.5 microns (PM2.5) is associated with poor respiratory outcomes. ...
GSE147320: Expression analysis after co-treatment of GSK126 and pomalidomide
To determine combination effect of GSK126 and pomalidomide at the RNA levels in EZH2 Y641 mutant DLB...
GSE145372: Whole transcriptome sequencing in human cervical adenocarcinoma and normal cervical tissues
mRNA, lncRNA, and miRNA signatures were identified to discriminate cervical adenocarcinoma from norm...
GSE148069: Targeting T-cell Lymphoma Epigenome Induces Cell Death, Cancer Testes Antigens, Immune Modulatory Signaling Pathways
We perform expression analysis on a panel of four T-cell lymphoma lines exposed to romidepsin and 5-...
GSE154122: Investigating the Mechanism of Adherent-Invasive E. coli Induced Mitochondrial Fission in the Intestinal Epithelium (Exp. 2)
RNA-seq was performed to interogate the transcriptional changes in response to infection with Adhere...
GSE150767: Dissecting the effect of a 3D micro-scaffold on the transcriptome of Neural Stem Cells with computational genomics
3D cell cultures are becoming more and more important in the field of regenerative medicine due to t...
GSE144794: RNA-sequencing of serial biopsies from 3 patients treated with Capivasertib (AZD5363)
First line treatment with AKT inhibitors combined with paclitaxel improves outcomes of metastatic TN...
GSE144853: Cleft lip and cleft palate (CL/P) in Esrp1 KO mice is associated with alterations in Wnt signaling and epithelial-mesenchymal crosstalk
To investigate the molecular mechanisms that lead to CL/P in Esrp1-/- mice, we performed RNA-Seq usi...
GSE143447: Role of TET1 Mediated 5hmC in Osteoarthritis [RNA-seq]
No disease-modifying drugs exist to treat osteoarthritis (OA), a degenerative disease of the joint. ...
GSE148198: MicroRNA-802 regulates the innate immune response through Paneth cell expansion and Wnt signaling
Paneth cells are important for maintaining epithelial cell renewal and modulating innate immune func...
GSE139399: Ribosome profiling study of Miwi-null testes
piRNAs are a novel class of small noncoding RNAs that were recently identified in animal germ cells....
GSE140590: Cd302 and Cr1l restrict human hepatotropic virus cross-species transmission to mice[7PMH CD302KO]
Virus species- and tissue-tropism is governed by host dependency and restriction factors. Hepatitis ...
GSE145129: Increased HDAC Activity and c-MYC Expression Mediate Acquired Resistance to WEE1 Inhibition in Acute Leukemia
WEE1 is a cell cycle and DNA damage response kinase that is emerging as a therapeutic target for can...
GSE144961: Circadian Cryptochrome 1 (CRY1) Rhythmically Modulates the DNA Damage Response [RNA-seq]
These studies identify a novel node of AR-regulated DNA repair through CRY1 directly regulating HR-m...
GSE146317: YAP/TAZ in vascular smooth muscle
Investigation of the physiogical functions of YAP/TAZ in vascular smooth muscle cells SOURCE: Stefan...
GSE150187: Lupus susceptibility gene Esrrg regulates TREG development and suppressive function through mitochondrial metabolism
To investigate insight into how Esrrg regulates the TREG transcriptional program, we performed high-...
GSE146043: The role of the NMD factor UPF3B in olfactory sensory neurons
The UPF3B-dependent branch of the nonsense-mediated RNA decay (NMD) pathway is critical for human co...
GSE137257: Oligosaccharide-dependent anti-inflammatory role of galectin-1 for macrophages in inflammatory bowel disease
Our previous study demonstrated that Galectin-1 plays a protective role for colitis by binding with ...
GSE152991: Decreased adipose tissue oxygenation is associated with insulin resistance in people with obesity
We evaluated the potential importance of adipose tissue (AT) oxygenation on AT biology and insulin s...
GSE146797: WGBS and RNA-seq of mouse livers and human Hep3B cells
We detected the contributions of CpG methylation in gene promoter to the expression of acute phase p...
GSE137368: RNAseq analysis of skeletal muscle transcriptomes from wild type and MLL4SET-MKO mice
This experiment was conducted to identify mRNA transcripts alteration in skeletal muscle of MLL4SET ...
GSE154133: Effects of PAK4 knockdown on gene expression in glioblastoma-associated endothelial cells
PAK4 was knocked down in human glioblastoma (GBM)-associated endothelial cells (ECs) using CRISPR-Ca...
GSE147235: Characterization of immune responses and the lung transcriptome in a murine model of instanasal IL-33 challenge
We provide a comprehensive assessment of the cellular, immunological, physiological and transcriptom...
GSE137243: Transcription factor Bach2 attenuates T cell receptor induced transcription to control regulatory T cell differentiation and homeostasis [RNA-seq II]
The differentiation and homeostasis of Foxp3+ regulatory T (Treg) cells is strictly controlled by T ...
GSE149802: Translational repression of G3BP in cancer and germ cells suppresses stress granules and enhances stress tolerance
Stress granules (SG) are membrane-less ribonucleoprotein condensates that form in response to variou...
GSE147276: Development of New Therapeutic Combinations for Ovarian Cancer Using Genetically Defined, Syngeneic Organoid Platform
The paucity of genetically informed, immune-competent tumor models impedes evaluation of conventiona...
GSE145380: Total RNA sequencing data of murine bone marrow derived macrophages from Apoe-/- and Apoe-/-/Treml4-/- mice stimulated with oxLDL
Treml4 has been recently caracterized as a protein-coding gene of the Trem family. It has been shown...
GSE138881: Skeletal Stem Cell Powering Cranial Suture Fate: An Answer to Craniosynostosis (scRNA-seq)
Purpose: The cranial suture is a fibrous joint, and similar to the growth plates of the skeletal lon...
GSE137653: polyA+ RNA sequencing on FACS sorted alveolar macrophages (CD45+SiglecF+CD11c+) from air and cigarette-smoke exposed wild type and miR-155 KO mice
Chronic obstructive pulmonary disease (COPD) is a highly prevalent respiratory disease characterized...
GSE150173: Transcriptional profiling of vTreg53 TCR transgenic Regulatory T (Treg) cells stimulated by agonist peptide
We reported transcriptional characterization of vTreg53 TCR transgenic Treg cells from splenic/lymph...
GSE144736: Copy Number Variation at 16p11.2 Imparts Transcriptional Alterations in Neural Development in an hiPSC-derived Model of Corticogenesis
Microdeletions and microduplications of the 16p11.2 chromosomal locus are implicated in a collection...
GSE145429: Reducing metastases stiffness by targeting fibroblasts improves therapeutic outcome in colorectal cancer [Tissue]
Analysis of colorectal primary tumors (pTU) and liver metastases (LM) tissue samples from patients a...
GSE154109: Risk-associated alterations in marrow T cells in pediatric leukemia
Current management of childhood leukemia is tailored based on disease risk determined by clinical fe...
GSE148354: Fluid-electrolyte homeostasis requires histone deacetylase function
We report the transcriptional changes with knock down of HDAC1 and HDAC2 from the epithelium of the ...
GSE137283: FosB-regulated gene expression in venral hippocampo-accumbal projection neurons
We examined here the regulation of gene expression in ventral hippocampus neurons that project to nu...
GSE140793: Interleukin-4/STAT6 signaling impairs the survival of mouse astroglia in vivo but not in vitro
Neurogenesis is limited in mammalian brains and Alzheimers disease conditions further reduce the neu...
GSE141115: Systematic assessment of tissue dissociation and storage biases in single-cell and single-nucleus RNA-seq workflows
Background: Single-cell RNA sequencing has been widely adopted to estimate the cellular composition ...
GSE154160: scRNA-seq of electrophysiologically characterized DRG neurons reveals subtype-specific and maturational differences in gene expression
Cultured dorsal root ganglia neurons of 4 and 12 weeks old C57Bl/6 mice were first characterized as ...
GSE154930: Phenotypic plasticity and partial EMT underlie local invasion and distant metastasis in colon cancer (Single cell RNA-Seq)
Phenotypic plasticity and partial EMT underlie local invasion and distant metastasis in colon cancer...
GSE146850: Vitamin D3 Metabolites Demonstrate Prognostic Value in EGFR-Mutant Lung Adenocarcinoma and Can be Deployed to Oppose Acquired Therapeutic Resistance
EGFR tyrosine kinase inhibitors (EGFR TKIs) are the standard of care treatment for patients with EGF...
GSE155650: Yap/Taz promote the scavenging of extracellular nutrients through macropinocytosis [RNA-Seq]
The uptake of macromolecules and cellular debris through macropinocytosis has emerged as an importan...
GSE137482: RNA-Seq of ischemic stroke in young and aged mice
Ischemic stroke is one of the leading causes of mortality and major healthcare and economic burden. ...
GSE155685: Estrogen receptor beta repurposes EZH2 to suppress oncogenic NFB signaling in triple negative breast cancer [RNA-Seq]
The purpose of this study was to elucidate the transcriptome of ER expressing MDA-MB-231 cells follo...
GSE146292: Stepwise chromatin and transcriptional acquisition of an intraepithelial lymphocyte program
Mesenteric lymph node (mLN) T cells undergo tissue adaptation upon migrating to intestinal lamina pr...
GSE146294: Transcriptional profiling and therapeutic targeting of oxidative stress in neuroinflammation (bulk RNA-seq dataset)
Oxidative stress is a central part of innate-immune induced neurodegeneration. However, the transcri...
GSE146874: Chromatin state maintains human myeloid leukemia by regulating m6A demethylase ALKBH5 expression [Slam-seq]
ALKBH5 is the RNA N(6)-methyladenosine (m6A) demethylase. To understhand the function and mechnism o...
GSE144953: Retinoic acid signaling within pancreatic endocrine progenitors regulates mouse and human pancreatic islet cell specification
Retinoic acid (RA) signaling is essential for multiple developmental processes, including appropriat...
GSE151030: Gene expression effects of PPAR-gamma serine 273 to alanine knock-in mutation in epididymal white adipose tissue
Mice maintained on high-fat diet (Research Diets #D12492) for 37 weeks. SOURCE: Alexander Banks (asb...
GSE135512: A single-cell transcriptomics CRISPR-activation screen identifies new epigenetic regulators of the zygotic genome activation progrmme (bulk RNA-seq of arrayed CRISPRa validations and bulk RNA-seq of Patz1, Dppa2, Smarca5 and Carhsp1 cDNA overexpression)
Zygotic genome activation (ZGA) is a crucial developmental milestone that remains poorly understood....
GSE147250: Combined TP53 and RB1 Loss Promotes Prostate Cancer Resistance to a Broad Spectrum of Cancer Therapeutics and Confers Vulnerability to Replication Stress
Prostate cancers (PC) with loss of the potent tumor suppressors TP53 and RB1 exhibit poor outcomes t...
GSE147693: Therapeutically reversible zonation-dependent endothelial cell transcriptomic changes with neurodegenerative disease associations in the aged brain
With advances in single-cell genomics, molecular signatures of cells comprising the brain vasculatur...
GSE147267: Investigating the epigentic and transciptional changes induced in tolerant T cells [RNA-seq]
Here we investigated the underlying mechanisms causing the suppression of normal immune responses wh...
GSE146353: Transcriptional profile of CAOV2 ovarian cancer cells with YAP silencing
We performed RNAseq to study the transcriptional changes of human CAOV2 ovarian cancer cells with or...
GSE146864: Fatostatin drug treatment of mouse primary microglia cultures
To test the effect of fatostatin on gene expression patterns in microglia, we treated mouse (C57BL/6...
GSE153079: cGAS-mediated induction of type I interferon due to inborn errors of histone pre-mRNA processing
A disturbance of histone protein composition renders nuclear DNA immunogenic, inducing a type I inte...
GSE147757: A multiple reporter protein tolerant mouse model
We report the generation of a novel mouse strain that is immunologically tolerant to exogenously int...
GSE148237: Maternal Immune Activation Disrupts Proteostasis in the Fetal Brain
Maternal infection and inflammation during pregnancy is associated with neurodevelopmental disorders...
GSE140583: Next Generation Sequencing Facilitates Quantitative Analysis Of Wild Type And Tbk1 N129D KI Murine Embryonic Fibroblast Transcriptomes
TBK1 is a multifunctional kinase phosphorylating a variety of proteins triggering innate immune sign...
GSE135618 (mouse): Transcriptional profiling of microglia; current state of the art and future perspectives
Microglia are the tissue macrophages of the central nervous system (CNS) and the first to respond to...
GSE147315: iPSCs from people with MS can differentiate into oligodendrocytes in a homeostatic but not an inflammatory milieu
Multiple sclerosis (MS) is an inflammatory and demyelinating disease of the central nervous system (...
GSE135603: Lin28b controls a neonatal to adult switch in B cell positive selection
The ability of B-1 cells to become positively selected into the mature B cell pool, despite being w...
GSE146358: The Dopamine Receptor Antagonist TFP Prevents Phenotype Conversion and Improves Survival in Mouse Models of Glioblastoma
Glioblastoma is the deadliest adult brain cancer and all patients ultimately succumb to the disease....
GSE147324: Nuclease-mediated depletion biases in ribosome footprint profiling libraries
Ribosome footprint profiling is a high throughput sequencing based technique that provides detailed ...
GSE146349: Adenosine A2A Receptor Null Chondrocyte Transcriptome Resembles that of Human Osteoarthiris Chodnrocytes
Osteoarthritis (OA) is a highly prevalent and morbid disease affecting over 30 million Americans. Ef...
GSE140772: The Toxoplasma gondii virulence factor ROP16 acts in cis and trans and suppresses T cell responses [BMMC_invitro_stim_24hr]
The ability of Toxoplasma gondii to inject the rhoptry kinase ROP16 into host cells results in the a...
GSE147329: Microglia promote glioblastoma growth via mTOR-mediated immunosuppressive conditioning of the tumor microenvironment.
Tumor-associated microglia and macrophages (TAM) are the most numerous non-neoplastic populations in...
GSE149864: Rapid Generation of Regionally Specified CNS Neurons by Sequential Patterning and Conversion of Human Induced Pluripotent Stem Cells
The differentiation of patient-specific induced pluripotent stem cells (iPSCs) into specific neurona...
GSE150966: LN immunoinfiltrate analysis
In this experiment we compare the expression profile of genes present in the lymph node or spleens o...
GSE154072: Next Generation Sequencing Facilitates Quantitative Analysis of Wild Type and lncRNA-DRR-/- Heart Transcriptomes
To understand the mechanism of lncRNA-DRR induced effect on cardiomyocyte proliferation, high-throug...
GSE146315: Emergent metastatic heterogeneity of primary tumor cells is restricted by the Ig-transmembrane protein VSIG VI
Our study prompeted us to assign, through spiked single cell RNAseq, metastatic function to transcr...
GSE137818: Mutations in homologous recombination genes BRCA1 and BRCA2 differentially affect the tumor microenvironment and response to checkpoint blockade immunotherapy
We report differential effects of mutations in genes of the homologous recombination (HR) pathway on...
GSE146890: Polar infection of Echovirus 30 causes differential barrier affection and gene regulation at the blood-CSF barrier
Among the non-polio enterovirus (NPEV) Echovirus-30 (E-30) is responsible for extensive global outbr...
GSE151063: Comprehensive analysis of the complexity and heterogeneity of the lncRNAs transcriptome in multiple myeloma
ssRNA-seq analysis of the transcriptional landscape of 38 multiple myeloma patients SOURCE: Xabier A...
GSE143396: Circadian analysis of the mouse retinal pigment epithelium transcriptome
Purpose: The presence of a phagocytic peak of photoreceptor outer segments by the retinal pigment ep...