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Sequencing-based assays (Page 120)
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GSE153337: STAT1 Dissociates Adipose Tissue Inflammation from Insulin Sensitivity in Obesity
Purpose: To determine how STAT1 activity in white adipocytes affects insulin sensitivity.; Methods: ...
GSE155198: Multi-omic data integration allows baseline immune signatures to predict hepatitis B vaccine response in a small cohort
Vaccination remains one of the most effective means of reducing the burden of infectious diseases gl...
GSE157661: Transcriptional profiling of hepatocyte, reprogrammed hepatocyte, and biliary cells [human]
Comparison of transcripts between human hepatocytes, human hepatocytes reprogrammed into biliary cel...
GSE99181: Selectively targeting bromodomain and extraterminal proteins for degradation as a novel anti-glioblastoma strategy [RNA-seq (time course)
Purpose: Characterization of mechanism and vulnerability of BET protein dependency in GBM cells. Me...
GSE52285: A Werner syndrome stem cell model unveils heterochromatin alterations as a driver of human aging
Our data throw light upon the effect of WRN deficiency on gene expression and epigenomic modificatio...
GSE152487: Mechanics of a multilayer epithelium instruct tumor architecture and function [adult]
Loss of normal tissue architecture is a hallmark of oncogenic transformation. Mechanical forces scul...
GSE155777: IRF3 prevents colorectal tumorigenesis via inhibiting the nuclear translocation of -catenin
Occurrence of Colorectal cancerCRCis relevant with gut microbiota. However, role of IRF3, a key sign...
GSE155237: RNAseq of nasal cells from pre-symptomatic volunteers experimentally infected with RSV
We report the analysis of nasal curettage cells by RNAseq collected at pre-symptomatic timepoints in...
GSE157646: RNA sequencing analysis of SLC6A15 overexpression in papillary thyroid cancer cells
Solute Carrier Family 6 Member 15 (SLC6A15) has been found with dysregulated expression in several k...
GSE148440: Molecular and cellular consequences of genetic knockout of Hdac2 and Hdac3 in striatal medium spiny neurons of Huntington's disease knock-in mice
Somatic expansion of the Huntingtons disease (HD) CAG repeat drives the rate of a pathogenic process...
GSE152486: Mechanics of a multilayer epithelium instruct tumor architecture and function [E15]
Loss of normal tissue architecture is a hallmark of oncogenic transformation. Mechanical forces scul...
GSE157652: Transcriptomic and functional deficits in human TREM2-/- microglia impair response to Alzheimers pathology in vivo
RNA-sequencing of human iPS-microglia isogenic for TREM2 after multiple treatments SOURCE: Mathew Bl...
GSE149662: Muscle Specific Insulin Receptor Overexpression Protects Mice from Diet-Induced Glucose Intolerance but Leads to Post-Receptor Insulin Resistance
Skeletal muscle insulin resistance is a prominent early feature in the pathogenesis of type 2 diabet...
GSE155176: Whole Tissue Transcriptome of HS Lesional, HS Nonlesional, and Healthy Skin
NOT PROVIDED; REQUESTED SOURCE: Margaret Lowe UCSF
GSE150634: RNA sequencing analysis of anti-CD3/CD28 stimulated wild type-OT1 (WT) and Lrch1-/- -OT1 (KO) CD8+ T cells
We report the differential gene expression between anti-CD3/CD28 stimulated WT and LRCH1-deficient C...
GSE155064: Gene expression profiling of Control and Low BCAA fed aged mouse muscle
Transcriptome analysis of RNA samples from quadriceps muscle to understand how restricting dietary B...
GSE151006: Wild-type and tafazzin-deficient clones of granulocyte-monocyte progenitors (GMP), ER-HOXB8 conditionally immortalized, immature, in estrogen.
Evaluate changes in gene expression resulting from the loss of the gene TAZ (protein tafazzin). Tafa...
GSE156875: Thymic stromal lymphopoietin limits primary and recall CD8+ T cell anti-viral responses
Thymic stromal lymphopoietin (TSLP) is a cytokine that acts directly on CD4+ T cells and dendritic c...
GSE156612: Stem cell-derived neutrophil-primed progenitors prevent lethal infection
We show that engineered neutrophil-primed progenitors derived from human induced pluripotent stem ce...
GSE157466: Quantitative transcriptome analysis of human embryonic stem cells, human mesenchymal stem cells and human musculoskeletal stem cells
We first derived human musculoskeletal stem cells from human embryonic stem cells. mRNA profiles of ...
GSE152573: RUNX1 and CBF-SMMHC transactivate target genes together in abnormal myeloid progenitors for leukemogenesis
Inversion of chromosome 16 is a consistent finding in patients with acute myeloid leukemia subtype M...
GSE155079: Enhancer priming by H3K4 methylation safeguards germline competence [RNA-seq]
Germline specification in mammals occurs through an inductive process whereby competent cells in the...
GSE155203: RNA expression in NSUN6 knockout cells
mRNA m5C, which has recently been implicated in the regulation of mRNA mobility, metabolism, and tra...
GSE157369: Global gene expression profiles of GATA6-AS1 knockdown cultures and control shRNA cultures at cardiomyocyte differentiation day 2 and day 5
Methods: RNA-seq libraries were prepared using the Illumina TruSeq technology. The libraries were qu...
GSE43440: Coordinated regulation of synthesis and stability of RNA during the acute TNF-induced proinflammatory response
Steady-state gene expression is a coordination of synthesis and decay of RNA through epigenetic regu...
GSE151565: Transcriptomic profiling of circadian genes in WT mouse tissues (mRNA-Seq)
A goal of a collaboration between the CHDI Foundation and Prof. Jenny Morton at Cambridge University...
GSE152617: Fibrosis and atrial fibrillation in Scn1b null mice
Scn1b-/- mice are a model of Early Infantile Developmental Epileptic Encephalopathy (EIDEE). These m...
GSE157380: Derivation of endometrial gland organoids from term placenta
A limitation of current methods for the generation of endometrial gland organoids is their reliance ...
GSE157518 (mouse): VISTA re-programs macrophage biology through the combined regulation of tolerance and anti-inflammatory pathways
1) BMDMs treated with anti-VISTA under tolerizing and immunizing conditions. 2) Time course analysis...
GSE150420: Transcriptomic differences between mouse tumor-infiltrating and splenic regulatory T cells with or without Treg-specific loss of CD177
The goal of this study was to identify transcriptomic differences between splenic regulatory T cells...
GSE151840: RNA sequence for macrodactyly ADSCs
Macrodactyly is a congenital malformation characterized by enlargement of bone and soft tissues in l...
GSE155289: Gata3 controls stem/progenitor maintenance potential in prostate organoids
The adult stem/progenitor cell maintenance in the prostate is regulated by a balance between BMP5 se...
GSE155030: Sphingosine kinase 2 regulates CD4+ T cell responses following LCMV Cl 13 infection
Viruses often establish persistent infections by interrupting immune cell responses. Sphingosine kin...
GSE157382: Subunit vaccine elicited lung TRM cells use fibroblast IL-17R signaling to provide serotype independent immunity against hypervirulent K. pneumoniae
Subunit vaccine conferred lung protection against heterologous strain through the augmentaion of lun...
GSE157351: AK-098_pmel-BO112
Bulk Tumor RNAseq after Adoptive T cell Therapy and Intratumoral BO112 SOURCE: Anusha Kalbasi UCLA
GSE157624: Next generation sequencing of CD11b+ cells from female and male Wildtype and Cystatin C knockout mice with experimental allergic encephalomyelitis (EAE)
Rationale: Towards clarifying the role of the cysteine protease inhibitor, Cystatin C (CysC), whose ...
GSE149716: Loss of cyclin A2 in murine colonic epithelial cells disrupts colon homeostasis by triggering DNA damage and dysplasia and high cyclin A2 expression is a good-prognosis factor in patients with colorectal cancer
To clarify the function of cyclin A2 in colon homeostasis and colorectal cancer (CRC) we generated m...
GSE149744: Widespread IFN-independent activities of mammalian STING in viral infection and tumor immune evasion
Type I interferon (IFN) response is the most recognized signaling activity of STING, and IFN signal...
GSE150784: Synergism between IL7R and CXCR4 drives BCR-ABL induced transformation in Philadelphia chromosome-positive acute lymphoblastic leukemia
Ph+ acute lymphoblastic leukemia (ALL) is characterized by the expression of an oncogenic fusion kin...
GSE157390: EHMT1 gene truncation in HEK293 cells recapitulates Kleefstra Syndrome disease phenotype
Haploinsufficiency of the Euchromatin histone methyltransferase 1 (EHMT1) gene leads to Kleefstra Sy...
GSE151562: Next Generation Sequencing Facilitates Quantitative Analysis of Runx2fl/fl and Gli1-CreERT2;Runx2fl/fl Mouse Molar Transcriptomes
Purpose: To study the function of Runx2 on mouse tooth root development. The goals of this study are...
GSE116929: Recapitulating the Human Segmentation Clock with Pluripotent Stem Cells - RNAseq analysis of in vitro induced human presomitic mesoderm (PSM) and identification of components of the human segmentation clock [Oscillation_Hs]
Pluripotent stem cells (PSCs) have increasingly been used to model different aspects of embryogenesi...
GSE142226 (human): Embryonic erythropoiesis and hemoglobin switching require transcriptional repressor ETO2 to modulate chromatin accessibility and looping (RNA-Seq)
ETO2 functions as a transcription repressor and is required for the embryonic erythropoiesis and the...
GSE149647: The effect of active YAP in neonatal heart of Xin knockout mice
Purpose: The goals of this study are 1) to define the transcriptome changes in the heart in the abse...
GSE155252: Mouse transcriptome of two genetic mutations of Grm1
We report two genetic mutations of GRM1, which are Grm1-S458A and Grm1b-R889W, identified from two n...
GSE156262: CMV-specific cytotoxic T lymphocytes (CTLs) RNA-seq at the early phase of allo-HCT
We conducted immune- and RNA-sequencing of HLA-A24-restricted CMVpp65-specific CTLs to better unders...
GSE157409: ERG-mediated coregulator complex formation maintains androgen receptor signaling in prostate cancer [Bulk RNA-seq]
We report the effects of ERG on prostate tumorigenesis, ERG-mediated oncogene addiction, and downstr...
GSE39821: RNA-Seq of cKIT+ sorted cells from 16-16.5 week old fetal testes and ovaries and RNA-Seq of TRA-1-60+ H1 hESCs
Generation of research quality, clinically relevant cell types in vitro from human pluripotent stem ...
GSE151460: bacTRAP profiling of seven different types of neurons , vulnerable and resistant to Alzheimer's disease (AD) across the lifetime of the mouse
We report here the bacTRAP (bacterial artificial chromosome , translating ribosome affinity purifica...
GSE148647: Transcriptome mapping of alveolar macrophages developing under Scgb1a1 deficiency.
Alveolar macrophage (AM) is a mononuclear phagocyte key to the defense against respiratory infection...
GSE156282: RNA-seq of WT liver with DEX, Zn and untreated controls
The cytokine TNF drives inflammatory diseases, e.g. Crohn disease. In a mouse model of TNF-induced s...
GSE157439: RNA sequencing of wild type and FXR KO CD8+T cells in fed/fasted LCMV-infected mice
Conditional ablation of FXR in T cells was achieved with CD4-Cre Nr1h4fl/fl mice. Twenty thousend co...
GSE151421: Sirt2 Inhibition Reprograms T Cell Metabolism to Confer Superior Anti-Tumor Immunity
Metabolism is a key driver of T cell functions, and the switch from oxidative-phosphorylation to aer...
GSE155131: Reversal of synaptic and behavioral deficits in a 16p11.2 duplication mouse model via restoration of the GABA synapse regulator Npas4
The human 16p11.2 gene locus is a hot spot for copy number variations, which predispose carriers to ...
GSE152595: Coordinated regulation of cellular identity-associated H3K4me3 breadth by the COMPASS family
Histone H3 lysine 4 trimethylation (H3K4me3) facilitates recruitment of transcription factors and ep...
GSE150801: Varenicline reduces ethanol consumption in male C57BL/6J mice: Potential gene expression mechanisms
In recent years, varenicline has been shown to decrease ethanol consumption in adult rodents providi...
GSE151630: Combinatorial single-cell analyses of granulocyte-monocyte progenitor heterogeneity reveals an early uni-potent neutrophil progenitor
Granulocyte-monocyte progenitors (GMPs) have been previously defined for their potential to generate...
GSE150755: RNA sequencing of late juvenile whole mouse wildtype and Adad2 mutant testis
Adenosine-to-inosine RNA editing, a fundamental RNA modification, is regulated by adenosine deaminas...
GSE155550: The SNARE Regulator Complexin3 is a Target of the Cone Circadian Clock in the Mouse Retina
Purpose: The goals of this study are to evaluate the impact of the removal of the key circadian cloc...
GSE153549: Transcriptomic Analysis Links the Response of Diverse Hypothalamic Cell Types to Sustained Diabetes Remission Induced by Fibroblast Growth Factor 1 [bulk RNA-seq]
In rodent models of type 2 diabetes (T2D), sustained remission of hyperglycemia can be induced by a ...
GSE152611: Neural Stem Cells Direct Axon Guidance via their Radial Fiber Scaffold
To determine the genes regulated by Fezf2 during neocortical development, we performed RNA-seq on Fe...
GSE155885: Molecular features of the measles virus viral fusion complex that favor infection and spread in the brain [mouse]
A measles virus (MeV) isolate bearing a single amino acid change in the fusion protein (F) -- L454W ...
GSE155310: Analysis of transcription profile for High Grade Serous Ovarian Cancer (HGSC) cell line panel and how it relates to chromosomal instability (CIN)
Seven HGSC cancer cell lines were analysed with two immortalised Fallopian tube derived cell lines a...
GSE151834: Type V collagen in scar tissue regulates the size of scar after heart injury
The mammalian heart possesses a poor ability to regenerate after acute ischemic cardiac injury and l...
GSE155356: Charaterization of monocytes/macrophages function in Club cell regeneration after naphthalene injury in WT mice
During repair phase after naphathalene injury 3 subsets of myeloid cells accumulate at the site of i...
GSE148882: Multi-omics analysis of hematopoietic progenitors in the fetal liver of Mettl3 deficient mice
N6-methyladenosine (m6A) is the most abundant RNA modification, but little is known about its role i...
GSE148859: Hepatocyte-Specific TAK1 Deficiency Drives RIPK1 Kinase-dependent Inflammation to Promote Liver Fibrosis and Hepatocellular Carcinoma
Transforming growth factor -activated kinase1 (TAK1) encoded by the gene MAP3K7 regulates multiple i...
GSE148977: An Integrated Epigenomic and Transcriptomic Map of Mouse and Human ab T Cell Development (Mouse scRNAseq)
ab lineage T cells, most of which are CD4+ or CD8+ and recognize MHC I or MHC II-presented antigens,...
GSE152715: Cell-type-specific transcriptomic perturbations in a mouse model of HNRNPU haploinsufficiency
We obtained cell-type-specific transcriptomic profiles from the neocortex and hippocampal brain regi...
GSE150983: HIF-1a and HIF-2a differently regulate tumour development, metabolism and inflammation of clear cell renal cell carcinoma in mice
Mutational inactivation of VHL is the earliest genetic event in the majority of clear cell renal cel...
GSE156692: Identification of cellular context sensitive regulatory variation in mouse genomes
RNA-seq and DHS mapping in hybrid mouse kidney, liver, lung, and B cells SOURCE: Matthew,T,Maurano (...
GSE156979: Hyaluronan Control of the Primary Vascular Barrier during Early Mouse Pregnancy is Mediated by Uterine NK Cells
The goals of this study are to the investigate how uterine NK cells mediate the role of hyaluronan a...
GSE151009: Dissecting the onset of random X-chromosome inactivation at high temporal and allelic resolution
To ensure dosage compensation between the sexes, one randomly chosen X chromosome is silenced in eac...
GSE151133: Substrate reduction therapy using Genz-667161 reduces levels of pathogenic components in a mouse model of neuronopathic forms of Gaucher disease
Most lysosomal storage diseases (LSDs) have a significant neurological component, including types 2 ...
GSE155359: Charaterization of function of ST2 receptor on macrophages function during Club cell regeneration after naphthalene injury in WT mice
During repair phase after naphathalene injury 3 subsets of myeloid cells accumulate at the site of i...
GSE156776: Translocation of Viable Gut Microbiota to Mesenteric Adipose Drives Formation of Creeping Fat in Humans
A mysterious feature of Crohns disease (CD) is the extra-intestinal manifestation of "creeping fat" ...
GSE152666: CARM1 inhibition reduces histone acetyltransferase activity causing synthetic lethality in CREBBP/EP300 mutated lymphomas [RNA-seq_MEF]
Somatic mutations affecting CREBBP and EP300 are a hallmark of Diffuse Large B Cell Lymphoma (DLBCL)...
GSE151234: Morphine leads to global genome changes of H3K27me3 levels in mESCs by a self-regulatory mechanism of Polycomb Repressive Complex 2 (PRC2)
Environmentally induced epigenetic changes can lead to health problems or disease, but the mechanism...
GSE152662: SWI/SNF inactivation in the endometrial epithelium leads to loss of epithelial integrity [Mouse EPCAM]
Although ARID1A mutations are a hallmark feature, mutations in other SWI/SNF chromatin remodeling su...
GSE155612: The effects of METTL3 on islet -cell function
Purpose: The goal of this study is to investigate how METTL3 regulates islet -cell function.; Method...
GSE152925: Inhibition of MAN2A1 enhances tumor response to anti-PD-L1
Immune checkpoint blockade (ICB) has shown remarkable efficacy, but in only a minority of cancer pat...
GSE153626: Transcriptomic profiling of normal plasma cells and MM models using bulk RNA-Seq
NRAS Q61 mutations are prevalent in advanced/relapsed multiple myeloma (MM) and correlate with poor ...
GSE152970: Genome-wide analysis of whole transcriptome of isolated mouse islets of Langerhans
Diabetes results from insufficient insulin secretion as a result of dysfunction to -cells within the...
GSE152774: Synaptic Schwann cells: specific labeling reveals unique cellular and molecular features
Perisynaptic Schwann cells (PSCs) are specialized, non-myelinating, synaptic glia of the neuromuscul...
GSE152677: Transcriptional profiling of intramembranous and endochondral ossification afterfracturein mice
Bonefracturerepair represents an important clinical challenge with nearly 1 million non-union fractu...
GSE152724: Expression profiling by RNA-Seq of 3T3 mouse pre-adipocyte cells after treatment with Indoxyl Sulphate or Oxidative LDL, with or without pNaKtide
We performed expression profiling by RNA-Seq on 3T3 mouse pre-adipocyte cells. Cells were divided in...
GSE157052: ELAVL1 Primarily Couples mRNA Stability with the 3'UTRs of Interferon Stimulated Genes
Upon detection of a pathogen, the innate immune system triggers signaling events leading to the tran...
GSE156849: Dissecting the Balance between Metabolic and Oncogenic Functions of Astrocyte Elevated Gene-1/Metadherin (AEG-1/MTDH)
Obesity is an enormous global health problem and obesity-induced non-alcoholic steatohepatitis (NASH...
GSE156895: RNA-seq in ovarian tissues of prenatally androgenized (PNA) mice
To investigate the molecular mechanism of PCOS underlying the hyperandrogenic phenotype, prenatally ...
GSE152751: Circadian clocks drive regeneration of pancreatic -cells in mice
We aimed to understand the functional roles of islet cellular oscillators under diabetic conditions ...
GSE152961: The RNA-binding proteins Roquin-1 and Regnase-1 interact and cooperate to prevent autoimmunity
This study aimed to analyze the transcriptomic changes occuring after knockout of alleles encoding f...
GSE151333: LT-HSC from young (2mo), middle-age (12mo) and old (22mo) mice for RNA-seq
Long-term hematopoietic stem cells (LT-HSCs) are responsible for lifelong maintenance and regenerati...
GSE152962: The heterogeneity of NKT cells in the liver revealed by single-cell RNA sequencing
CD1d-dependent type I NKT cells, which are activated by lipid antigen, are known to play important r...
GSE151395: CD5 dynamically calibrates basal NF-KB signaling in T cells during thymic development and peripheral activation
Immature T cells undergo a process of positive selection in the thymus when their new T cell recepto...
GSE151465: Yap1-Scribble polarization is required for hematopoietic stem cell division and fate
Yap1 and its paralogue Taz largely control epithelial tissue growth. We have identified that hematop...
GSE151533: The TGF- superfamily cytokine Activin-A is induced during autoimmune neuroinflammation and drives pathogenic Th17 cell differentiation
Th17 cells are known to exert pathogenic and non-pathogenic functions. Although the cytokine transfo...
GSE151577: BAHCC1 couples H3K27me3 to gene silencing and tumorigenesis via a conserved BAH module [Gw760_E2aPbx1_mouse_Rnaseq]
Tri-methylation of histone H3lysine 27 (H3K27me3) regulatestranscriptional repression, cell-fate det...
GSE157277: Transcriptomic and clonal characterization of T cells in the human central nervous system
Tissues develop unique homeostatic immune states through specific recruitment of immune cells that a...
GSE153732: RNA-seq analysis of mammary tissue reveals persistent changes in gene expression profiles dependent upon the level of folic acid intake in C56BL/6 mice.
Purpose: To identify, using RNA-sequencing, differentially expressed genes in the mammary gland of m...
GSE153817: Epigenetic hallmarks of age-related macular degeneration are recapitulated in a photosensitive mouse model
Age-related macular degeneration (AMD) is a chronic, multifactorial disorder and a leading cause of ...