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Sequencing-based assays page 65
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GSE109608: RNA-Guided Transcriptional Silencing In Vivo with S. aureus CRISPR-Cas9 Repressors
CRISPR-Cas9 transcriptional repressors have emerged as robust tools for disrupting gene regulation i...
GSE109984: Dissection of memory response B cell populations by single cell RNA-seq
SWHEL B cells were adoptively transferred and recipient mice were immunised with hen egg lysozyme (H...
GSE111118: mRNA profiles of active hematopoieitc stem cells
Purpose: The goals of this study are to elucidate the underlying mechanism for the activation of HSC...
GSE113081: Comparative Transcriptomic Analysis of Dermal Wound Healing Reveals De Novo Skeletal Muscle Regeneration in Acomys cahirinus
This project is a comprehensive analysis of gene expression following full-thickness excisional derm...
GSE114710: Impact of Escherichia coli K12 and O18 on human platelets: effects on platelet activation, spliced platelet RNAs and proteins
We report RNA-sequencing data of 12 platelet samples isolated from four healthy individuals and incu...
GSE110328: Effects of gene-by-environment interaction on the transcriptome of mice deficient for tryptophan hydroxylase 2 [RNA-seq]
Purpose: Investigation of effects of early adversity in mice deficient for brain serotonin on the tr...
GSE111272: Global transcriptome analysis of HAP1 cells
We analyzed the global change in transcription upon CHD3-KO and SENP1-KO compared to control HAP1 ce...
GSE101546: SETDB1 controls T helper cell lineage integrity by repressing endogenous retroviruses
Upon activation, nave CD4 T cells differentiate into distinct helper or regulatory T cell subsets de...
GSE111120: Deep transcriptomic analysis of human vascular cells identifies novel risk genes for common vascular diseases
Several genome-wide association studies have to date been carried out to identify genetic risk loci ...
GSE122446: Age-dependent decline of TET1-mediated DNA hydroxy-methylation impairs myelin regeneration after injury
Adult myelination is recognized as essential for brain function and response to injury and yet, its ...
GSE111910: WT and Hira-null undifferentiated mESCs and day15 differentiated cardiomyocytes
Purpose: The goals of this study are to compare transcriptome profiling (RNA-seq) resulting from the...
GSE109913: Gene expression profiling on alveolar epithelial cells from mice intratracheally instilled with or without bleomycin or LPS.
We applied next-generation sequencing to investigate the gene expression profiles in mouse alveolar ...
GSE108353: A Forward Genetic Screen Targeting the Endothelium Reveals a Regulatory Role for the Lipid Kinase Pi4ka in Myelo- and Erythropoiesis [mutant]
Definitive hematopoietic cells arise from hemogenic endothelium during mid-gestation, indicating a d...
GSE110495: Therapeutic targeting of the pre-metastatic stage in human brain metastasis
We have used our established brain metastasis initiating cell (BMIC) models and gene expression anal...
GSE132672: Comparison of Cortical Organoids to Human Cortex Identifies Cellular Identity and Maturation Differences
Direct Comparisons Between Cortical Organoids Generated with 3 Distinct Protocols and Primary Develo...
GSE111292: RNA-Seq analysis of murine pro-B BAF3 cells transfected with oncogenic form of receptor tyrosine kinases
To identify gene expression changes associated with receptor tyrosine kinase (RTK) activation, we pe...
GSE112059: Differentially expressed genes in HUVEC following miRNA-146a overexpression
We report that miRNA-146a exerts anti-proliferative effects on endothelial cells in vitro as well as...
GSE100599: Genome-wide Regulation of Electro-acupuncture on the Neural Stat5-loss-induced Obese Mice
Purpose: Acupuncture is reported to be effective in treating obesity related illnesses, but its mech...
GSE117712: Inhibition of casein kinase 2 disrupts differentiation of myeloid cells in cancer and enhances the efficacy of immunotherapy in mice
The role of myeloid cells as regulators of tumor progression that significantly impact the efficacy ...
GSE111862: PIMT/NcoA6IP deletion in the mouse heart causes delayed cardiomyopathy attributable to perturbation in energy metabolism
Global gene expression analysis reveals that PIMT regulates many genes involved in energy metabolism...
GSE111977: Efficient generation of human CA3 neurons and modeling hippocampal neuronal connectivity in vitro (bulk)
Despite widespread interest in using human stem cells in neurological disease modeling, a suitable m...
GSE104473: ATAC-seq and RNA-seq from mouse mandible during distraction osteogenesis
During development and tissue regeneration, changes in chromatin structure driven by master transcri...
GSE112491: BRG1 governs Glucocorticoid Receptor interactions with chromatin and pioneer factors across the genome
The Glucocorticoid Receptor (GR) alters transcriptional activity in response to hormones by interact...
GSE122535: Transcriptomic analysis to functionally map the intrinsically disordered domain of EWS/FLI [Experiment 1]
The purpose of this study was to define unique classes of EWS/FLI target genes and the distinct set ...
GSE112201: RNA Misplicing in Fuchs Endothelial Corneal Dystrophy II
RNA-Seq splicing data from the corneal endothelia of FECD patients and controls reveal hundreds of...
GSE122459: SLE PBMC RNA-seq
RNA sequencing of systemic lupus erythematosus (SLE) and healthy PBMCs to measure transcriptional ch...
GSE103440: Demodifying RNA for Transcriptomic Analyses of Archival Formalin-Fixed Paraffin-Embedded Samples
Low RNA yield and quality limit use of formalin-fixed paraffin-embedded (FFPE) tissue samples for ge...
GSE110351: Early lineage segregation of multipotent embryonic mammary gland progenitors [RNA-Seq II]
We report single cell RNA-seq data that reveals that Embryonic Multipotent Progenitors (EMPs) in the...
GSE114815: Reduction of Protein Kinase A-mediated Phosphorylation of ATXN1-S776 in Purkinje Cells Delays Onset of Ataxia in a SCA1 Mouse Model.
Spinocerebellar ataxia type 1 (SCA1) is a polyglutamine (polyQ) repeat neurodegenerative disease in ...
GSE100535: Transcriptional Pause Sites Delineate Stable Nucleosome-Associated Premature Polyadenylation Suppressed by U1 snRNP [RNA-seq]
Regulation of RNA polymerase II (Pol II) elongation is a critical step in gene regulation. Here, we ...
GSE113323: ERK1/2-RSK2 signaling is a developmental switch required for estrogen homeostasis
Transcriptomic analysis of the mature ER+ population in the mammary gland revealed enrichment for es...
GSE112068: Study of dynamic transcriptome profiling in DNA damage-induced cellular senescence and transient cell-cycle arrest
For studing dynamic transcriptome profiling in DNA damage-induced cellular senescence and transient ...
GSE113194: Human ZNF341 deficiency underlies a recessive form of hyper IgE syndrome by disrupting STAT3 transcription-dependent STAT3 activity
Heterozygosity for human STAT3 dominant-negative (DN) mutations underlies an autosomal dominant form...
GSE102313: Epigenetic profiling in Utx germline conditional knockouts and F1 offspring
Susceptibility to cancer is highly heritable, but much of this heritability remains unexplained. So...
GSE114850: RNA expression following TMPRSS11B overexpression or depletion
Purpose: We are analyzing differential gene expression in human bronchial epithelial cells with TMPR...
GSE114809: Three-dimensional brain-like microenvironments facilitate the direct reprogramming of fibroblasts into therapeutic neurons
We report differential mRNA expression levels in primary mouse embryonic fibroblasts, primary neuron...
GSE110178: LSD1 inhibition by tranylcypromine derivatives interferes with GFI1-mediated repression of PU.1 target genes and induces differentiation in AML
Lsd1KO and ATRA treatment in Hoxa9/Meis1- and MN1-transformed myeloid progenitor cells; LSD1 has eme...
GSE102351: Response of murine lymphatic endothelial cells to stimulation with vascular enothelial growth factor-C (VEGF-C)
The goal of this study is to investigate changes in gene expression profile of lymphatic endothelial...
GSE111928: Determine genes differentially expressed between Raji cells and a subline which is resistant to APTO-253 (Raji/253R)
To obtain further insight into the resistance mechanism, RNA-seq analysis was carried out on 3 indep...
GSE112112: Nascent transcription of E14, PWWP2AKO, and PWWP2A/B DKO
Transcriptional regulation by chromatin is a highly dynamic process directed through the recruitment...
GSE113817: Bach1 Regulates the Self-renewal and Mesendodermal Differentiation of Human Embryonic Stem Cells
Transcription factor Bach1 is a member of the alkaline leucine zipper protein family. Our results th...
GSE152032: Ablation of S1PR4 triggers CD8+ T cell expansion to reduce tumor growth and improve therapy
We studied the role of S1PR4 on tumor progression using the PyMT mammary carcinoma mouse model and t...
GSE102239: Transient postnatal lung changes on alveolar development after in utero and lactation exposure to nicotine
Purpose: The goal of this study is to address the consequences of in utero and early life nicotine e...
GSE139835: Ig repertoire of IgG+ murine memory B cells
BCR repertoire sequencing of isotype-switched memory B cells Aim of the study was to explore the dif...
GSE112735: A genome-wide screen identifies E2F6 as critical factor for TMZ chemoresistance in EGFRvIII expressing GBM (EGFRvIII RNA-seq)
we conducted a genome-wide screen by clustered regularly interspaced short palindromic repeats (CRIS...
GSE112886: Generation of esophageal organoids from human pluripotent stem cells and their use to study human development
Tracheoesophageal disorders and diseases are prevalent in humans such that an organoid model of huma...
GSE113804: Trans-differentiation of human adult peripheral blood T cells into neurons
Examining the transcriptomic changes during transdifferentiation of peripheral blood mononuclear cel...
GSE113476: RNAseq of Breast cancer PDX samples
RNAseq was done on Breast cancer PDX samples uisng Library protocol =llumina TruSeq Stranded Total R...
GSE102294: CpG on carbon nanotubes inhibits migration of brain tumor cells while activating immune cells
Even when treated with aggressive current therapies, patients with glioblastoma usually survive less...
GSE101767: Exome sequencing analysis of murine medulloblastoma models identifies Wdr11 as a potential tumor suppressor in Group 3 tumors
We previoiusly identified WDR11 as a potential tumor suppressor in murine medulloblastoma models. To...
GSE112860: mRNA expression of murine hematopoietic stem cells and ex vivo murine MLL-AF9 cells deficient for total PRDM16 or f-PRDM16, and AF9 cells overexpressing individual PRDM16 isoforms
Group 1 -- WT or PRDM16-KO ex vivo murine MLL-AF9 cells, and PRDM16-KO AF9 cells overexpressing eith...
GSE113041: A non-canonical SWI/SNF complex underlies synthetic lethality in cancers driven by BAF complex perturbation [RNA-seq]
Mammalian SWI/SNF chromatin remodeling complexes exist in three distinct, final-form assemblies: can...
GSE102774: Expression regulation by Pcgf3 and Pcgf5 in mouse embryonic stem cells
Polycomb group (PcG) proteins are epigenetic transcriptional repressors that orchestrate numerous de...
GSE112973: Molecular subtype-specific immunocompetent models of high-grade urothelial carcinoma reveal differential neoantigen expression and response to immunotherapy
We developed a UPPL (Upk3a-CreERT2;p53f/f;Ptenf/f;Rosa26LSL-Luc) mouse model of bladder cancer and c...
GSE103662: iMEF SDHC-loss RNA-seq time course
We have developed a tet-inducible immortalized mouse embryonic fibroblast (iMEF) cell culture model ...
GSE111571: YAP and MRTF-A, transcriptional co-activators of RhoA- mediated gene expression, are critical for glioblastoma tumorigenicity
The role of YAP (Yes associated protein 1 gene) and MRTF-A (Megakaryoblastic Leukemia gene, MLK1), t...
GSE117749: RNA-seq reveals novel PAF1c regulation of transcription in mouse hematopoietic progenitor cells
The Polymerase Associated Factor 1 complex (PAF1c) functions at the interface of epigenetics and gen...
GSE113588: Profiling of lung tumor-infiltrating CD8 T cells according to their expression status of CD39
Human tumors are infiltrated by various immune cells, including CD8 T cells. CD8 T cells express uni...
GSE124528: Gene expression analysis of immortalized human liver progenitor-like cells in culture
We described a highly efficient method to establish the immortalized HepLPC cell, these cell lines c...
GSE112226: Transcriptional profiling of intestinal changes following APC loss
Vil-CreERT2 was used to drive loss of APC (Adenomatous polyposis coli) in the murine intestinal epit...
GSE102291: The microRNA-200 family mediates hair follicle development through coordinated regulation of cell adhesion and polarity
The microRNA-200 family is highly expressed in epithelial cells and frequently lost in metastatic ca...
GSE103524: Gene expression profiles of parental and mutant SMB21 cells derived from drug resistance screen
Drug resistance poses a great challenge to targeted cancer therapies. In Hedgehog pathway-dependent ...
GSE114173: Molecular basis of neuronal subtype bias introduced by proneural factors Ascl1 and Neurog2 (RNA-seq)
Basic helix-loop-helix (bHLH) proneural transcription factors (TFs) Ascl1 and Neurog2 are integral t...
GSE115025: Transcriptional profile of monocytes in the colon in response to C. rodentium infection
Transcriptional profile of monocytes in the colon in response to C. rodentium infection SOURCE: Patr...
GSE112171: Systems genetics identifies a macrophage cholesterol network that associates with physiological wound healing
We generated a genomic and phenotypic resource comprising genetically outbred mice in which we measu...
GSE114894: Protein arginine methyltransferase PRMT1 is essential for palatogenesis
We report that neural crest-specific deletion of Prmt1 caused craniofacial malformations including c...
GSE113821: mRNA Seq of mouse tissues 9 days or 9 weeks after RYGB or sham surgery [9 days]
In this study we sought to characterize the acute response to RYGB surgery using diet induced obese ...
GSE117756: WNT signalling activity on epiblast cells (RNA-seq analysis)
The impact of WNT signalling activity on the acquisition and restriction of lineage propensity of ge...
GSE127736: Disruption of the exocyst induces podocyte loss and dysfunction
In this study we plan to compare the profiles of control sample (cultured podocytes) with the Exoc5 ...
GSE114191 (mouse): Repurposing of promoters and enhancers during mammalian evolution
The spatiotemporal control of gene expression exerted by promoters and enhancers is central for orga...
GSE104459: PITX1 Promotes Chondrogenesis and Myogenesis in Mouse Hindlimbs Through Conserved Regulatory Targets [RNA-Seq]
The PITX1 transcription factor is expressed during hindlimb development, where it plays a critical r...
GSE113837: Sequencing of Tumor infiltrating macrophages from B16f10 tumors in Wt and IFNR knockout mice
We report the application of RNA sequencing to determine the transcriptional result of IFNgR deletio...
GSE105147: Translation control of the immune checkpoint in cancer and its therapeutic targeting
Cancer cells develop mechanisms to escape immunosurveillance, among which modulating the expression ...
GSE121258: RNA-seq Analysis of Castration-Resistant Prostate Cancer With Knock-down of E2F1
From castration resistant prostate cancer (CRPC) regulatory network, we found over 90% negative feed...
GSE127758: Aged blood impairs hippocampal neural precursor activity and activates microglia via brain endothelial cell VCAM1
RNAseq of Old (19 month) vs Yound (3 month) mouse brain endothelial cells SOURCE: Hanadie YousefTony...
GSE111216: Mouse transcriptomics reveals extracellular matrix organization as a major pathway involved in inflammatory and neuropathic pain
Chronic pain is a debilitating and poorly-treated condition. The mechanisms underlying the developme...
GSE112143: Drp1 controls an effective T cells' immune-surveillance by regulating their migration, proliferation and cMyc-dependent metabolic reprogramming.
We performed RNAseq analysis of 3 daysin vitroactivated control and Drp1 KO T cells to investigate t...
GSE111660: Transcriptome profiling of WT and Prdm16 mutant cells in embryonic mouse cerebral cortex.
Transcriptome profiling of radial glia, intermediate progenitors, and cortical neurons in WT and Prd...
GSE111981: Transcriptome of CD8 T cells before and after PD-1 ICI therapy
We compared the transcriptom between respondrs and non-responders before and after PD-1 blockade the...
GSE111647: Identify the genes deregulated by the loss of GPS2 in adipocytes during obesity and metabolic activation (beta-adrenergic stimulation).
We report dysfunctional adipose tissue is linked to the loss of GPS2 in adipocyte. SOURCE: Nicolas V...
GSE85917: Single cell RNA-seq data of human hESCs to evaluate SCnorm: robust normalization of single-cell rna-seq data
Normalization of RNA-sequencing data is essential for accurate downstream inference, but the assumpt...
GSE103377: Hippocampus transcriptome analysis of CHD8 Asn2373LysfsX2 heterozygote mutation mice age of P25
CHD8, encoding a chromatin remodeling protein, is one of the most frequently mutated genes in autism...
GSE116906: PRDM15 promotes lymphomagenesis by transcriptionally rewiring B cells metabolism
RNAseq of samples to identify changes in gene expression upon acute PRDM15 deletion SOURCE: Diana,HP...
GSE112295: Active translatome profiling with RiboLace in MCF7 cells
We developed RiboLace, a novel method based on a new puromycin-containing molecule, for the isolatio...
GSE111252: Bromodomain and extraterminal proteins foster the core transcriptional regulatory programs and confer vulnerability in liposarcoma (RNA-Seq)
Purpose: Identification of core transcriptional regulatory programs and bromodomain and extratermina...
GSE104503: Ribosome-profiling experiments for Chronic repression by MAF1 supports futile RNA cycling as a mechanism for obesity resistance
To characterize the translation defects in Maf1-/- samples, we used ribosome profiling on three WT a...
GSE111224: Impaired local translation of -actin mRNA in Ighmbp2-deficient motoneurons: implications for spinal muscular atrophy with respiratory distress (SMARD1)
Spinal muscular atrophy with respiratory distress type 1 (SMARD1) is a fatal motoneuron disorder in ...
GSE102342: Transcriptome Changes During the Progression of Colitis-accelerated Colon Cancer in Mouse and the Blockage by Curcumin
Inflammation is highly associated with colon carcinogenesis. Epigenetic mechanisms play an important...
GSE116131: RNA-seq of synchronized S phase or G2 phase cells treated with an ATR inhibitor
We performed RNA-seq in cells synchronized to S or G2 phase to identify genes that were transcriptio...
GSE113493: Global transcriptional profiling changes upon knockdown of G9a in human non-small cell lung cancer cells
The experiment was designed to display differential gene expression profiling changes in two human N...
GSE111775: TDP-43 modulates translation of specific mRNAs linked to neurodegenerative disease
We generated total mRNA libraries and ribosome footprint libraries from motor neuron-like cells (MN1...
GSE113253: Osteogenesis depends on commissioning of a network of stem cell transcription factors that act as repressors of adipogenesis
Here we have used both chromatin accessibility and enhancer activity marks to study enhancer activat...
GSE111992: Human iPSC-derived glomeruli provide an advanced model to interrogate podocyte biology and accurately recapitulate podocytopathy
Podocytes are highly specialised cells within the glomeruli of the kidney that maintain the filtrati...
GSE112243: RNAseq of cell lines with knocked in ESR1 mutations
The study was designed to investigae the transcriprional changes induced by the Y537S, D538G and E38...
GSE114207: Mice Harboring the Human SLC30A8 R138X Loss-of-Function Mutation Have Increased Insulin Secretory Capacity
SLC30A8 encodes a zinc transporter that is primarily expressed in the pancreatic islets of Langerhan...
GSE113477: Activity-dependent aberrations in gene expression and alternative splicing in a mouse model of Rett syndrome
Rett syndrome (RTT) is a severe neurodevelopmental disorder that is caused by mutations in the gene ...
GSE112241: MicroRNAs reinforce repression of PRC2 transcriptional targets independently and through a feed-forward regulatory network with PRC2 [RNA-seq]
We performed RNA-seq to identify differentially expressed genes in response to knockout of EZH2 and ...
GSE112984: Characterization of myocardial B cells in nave hearts, acutely injured hearts and acutely injured hearts of mice treated with Pirfenidone
Myocardial CD19+CD11b+ and CD19+CD11b- cells were FACS sorted from transgenic mice expressing the Di...
GSE116385: Epigenetic and transcriptomic profiling of mammary gland development and tumor models disclose regulators of cell state plasticity [RNA-seq]
We performed RNA-seq on normal mammary cell populations and mouse mammary tumor cell populations SOU...
GSE102446: Pervasive transcription and endosiRNAs restrain transposons during global demethylation in embryonic stem cells [RNA-Seq 2]
DNA methylation and other repressive epigenetic marks are erased in the mammalian germline and trans...