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Sequencing-based assays (Page 21)
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GSE113293: Phenotyping spermatogenic defects by single-cell expression profiling
Using Drop-seq, we generated high-throughput single-cell expression data from wild-type and four mut...
GSE129308: Molecular signatures underlying neurofibrillary tangle susceptibility in Alzheimers disease
Aggregation of hyperphosphorylated tau in neurofibrillary tangles (NFTs) is closely associated with ...
GSE110357: Identification of the tumour transition states occurring during EMT
scRNAseq of YFP+ Epcam+ and Epcam- skin squamous cell carcinoma cells SOURCE: Alejandro Sifrim (alej...
GSE110649: RNA sequencing of wildtype-KRAS HKE3 (wtHKE3) and mutant-KRAS HKE3 (mtHKE3) colorectal cancer cell lines before and after stimulation with TGF-alpha
RNA sequencing was performed on wtHKE3 and mtHKE3 colorectal cancer cell lines (obtained from Shiras...
GSE99516: YY1 is a structural regulator of enhancer-promoter loops [RNA-Seq]
There is considerable evidence that chromosome structure plays important roles in gene control, but ...
GSE101386: RNA-seq analysis of various colon cancer cell lines with TET2 overexpression
Three cancer cell line, ie SW480, SW620 and Caco-2, were treated with TET2, TET2CD and control vecto...
GSE119606: Inhibition of Enhancer of Zeste Homologue 2 attenuates TGF- dependent hepatic stellate cell activation and liver fibrosis
We report the effect of TGF vs PDGF 2h treatment in hepatic stellate cells. We also report the effe...
GSE104836: Differentially expressed LncRNAs and mRNA identified by SEQ analysis in colorectal cancer patients
LncRNA plays an important role in gene regulation, but its impact on the pathogenesis of colorectal ...
GSE106552: H3K27Ac in MCF7 Y537S ER mutant cells and RNAseq with and without treatment with THZ1
H3K27Ac ChIP-seq in MCF7 Y537S ER mutant cells; RNAseq analysis of MCF7 Y537S ER mutant cells treate...
GSE111596: NUP155 insufficiency recalibrates a pluripotent transcriptome with network remodeling of a cardiogenic signaling module of a pluripotent network
Background: Atrial fibrillation is a cardiac disease driven by numerous idiopathic etiologies. NUP15...
GSE90855: Acetyl CoA metabolism by ACSS2 regulates neuronal histone acetylation and hippocampal memory [RNA-seq In Vivo]
Metabolic production of acetyl-CoA has been linked to histone acetylation and gene regulation, howev...
GSE93716: Transfection experiment with vector containing TP73-AS1 sponge region and miR-941
miRNA sponge, a special class of miRNA target, has been emerging as a pivotal player in miRNA media...
GSE113151: LH3 overexpression reverses profound alterations of gene transcriptional profile in cerebral vessels in hypertension-induced spontaneous intracerebral hemorrhage
To gain mechanistic insights into the protection effects of lysyl hydroxylase (LH3) on reducing the ...
GSE109324: Single cell RNA-seq of long-term hematopoietic stem cells (LT-HSCs) and common myeloid progenitors (CMPs)
We aimed to reseach the differences between IL4R high and low expression LT-HSC/CMP,our data reveale...
GSE95277: H3.3K27M cooperates with p53 loss and Pdgfra gain in mouse embryonic neural progenitor cells to induce invasive high-grade gliomas [Human RNA-Seq]
Gain-of-function mutations in histone 3 (H3) variants are found in a large proportion of pediatric h...
GSE110382: Effect of H3.3 depletion on NuRD subunit binding and GE
Genome-wide mapping of NuRD subunits, H3.3, and histone modifications in WT and H3.3 KD 3T3 MEFs. RN...
GSE112661: RNAseq of SEC23B wildtype (WT) and mutant (MUT) thyroid cell lines treated with Tunicamycin (Tunica, ER stress)
We report gene expression changes between SEC23B WT and MUT cells after treatment with Tunicamycin. ...
GSE112523: DNA methylation in neurons from post-mortem brains in schizophrenia and bipolar disorder (RNA-Seq)
We fine-mapped DNA methylation in neuronal nuclei (NeuN+) isolated by flow cytometry from post-morte...
GSE94245: Noncoding deletions reveal a gene that is critical for intestinal function
Large-scale genome sequencing is poised to provide a substantial increase in the rate of discovery o...
GSE113158: Elucidating the role of glycogen debranching enzyme AGL in bladder carcinogenesis by generation and characterization of knockout mice
Amylo-alpha-1-6-glucosidase-4-alpha-glucanotransferase (AGL) is an enzyme primarily responsible for ...
GSE90860: Transcriptomic and anatomic parcellation of 5-HT3AR expressing cortical interneuron subtypes revealed by single-cell RNA sequencing
Cortical GABAergic interneurons constitute a highly diverse population of inhibitory neurons that ar...
GSE92456: Transcriptome analysis of dominant-negative Brd4 mutants identifies Brd4-specific target genes of BET inhibitor JQ1
We analyzed anti-proliferative dominant-negative Brd4 mutants that compete with the function of dist...
GSE93394: Quantitative Analysis of Wild Type and Tlx3f/f;SNS-cre dorsal root ganglion Transcriptomes by RNAseq
purpose: to analyse the differentially expressed genes in dorsal root ganglion between Wild Type and...
GSE111692: Precocious expression of Blimp1 in the B cell lineage causes autoimmunity
The transcription factor Blimp1 is not only an essential regulator of plasma cells, but also a risk ...
GSE109255: Effect of BRD4 deletion on the Transcriptome of Different Thymocyte Subpopulations
By conditionally deleting BRD4 at various stages of thymic differentiation, we have established that...
GSE111430: Lens epithelial cell transcriptome reprogramming at 24 hours post cataract surgery
This trancriptome analysis reveals the first detailed analysis on how the remnant lens epithelial ce...
GSE107762: Identification of PRMT5-dependent genes in ESA+CD24lowCD44+ MCF7 cells
PRMT5 has been associated with poor prognosis in breast cancer. Here, we identify genes which are de...
GSE84063: Myocardin-related Transcription Factors Are Required for Skeletal Muscle Development
Myocardin-related transcription factors (MRTFs) play a central role in the regulation of actin expre...
GSE94264: ATR Mutations Promote the Growth of Melenama Tumor by Modulating the Immune Microenvironment [tumor]
Melanomas accumulate a high burden of mutations that could potentially generate neoantigens, yet the...
GSE102983: Rejuvenation and conversion of skin fibroblasts for immune modulation and bone and cartilage repair in vivo
Mesenchymal stem cells (MSCs) exist in many tissues and have emerged as promising candidates for the...
GSE110309: Molecular signature of CAID syndrome: evidence for non-canonical roles of SGO1 in regulation of TGF- signaling and epigenomics [RNA-seq]
RNA sequencing of human dermal fibroblasts from CAID patients passage 8 and passage 14 SOURCE: Grego...
GSE111624: Distinct oncogenic roles of protein arginine methyltransferases (PRMTs) in mammary gland tumorigenesis using transgenic overexpression mouse models
DEGs in the mammary epithelical cells between NIC and NIC-Prmt SOURCE: Jianqiang Bao (jbao2@mdanders...
GSE84098: Zeb2 is Essential for Bergmann Glial Development and Cerebellar Organization
Cerebellar circuitry is critical for balance and motor control among a wide array of functions and l...
GSE110915: Developmental origins define epigenomic differences between subcutaneous and visceral adipocytes [RNA_seq_Whole]
To understand the molecular differences between adipocytes and their contribution to cell-type speci...
GSE94019: Transcriptomic Analysis of Endothelial Cells from Fibrovascular Membranes in Proliferative Diabetic Retinopathy
Purpose: Identification of RUNX1 via next-generation sequencing (NGS) of fibrovascular membranes in ...
GSE107992: A modular transcriptional signature identifies phenotypic heterogeneity of human tuberculosis infection [Berry_South Africa]
Whole blood transcriptional signatures distinguishing patients with active tuberculosis from asympto...
GSE93528: Transcriptome analysis of human immortilized astrocytes reprogrammed into dopaminergic neurons
We directly reprogram human astrocytes (hIA) in vitro into induced dopaminergic neurons (iDAs). This...
GSE106419: Gene expression analyses of mouse mesenchymal cells, keratinocytes and induced stratified epithelial progenitor cells.
We report the method for generating epithelial tissues from bottom of ulcer by lineage conversion. B...
GSE99310 (mouse): Enhancer reprogramming promotes pancreatic cancer progression and metastasis [RNA-seq]
Pancreatic ductal adenocarcinoma (PDA) is one of the most lethal human malignancies, owing in part t...
GSE105121: TET1 KO affects Sox9 function [growth plate tissue]
We report that TET1 mediated 5hmC deposition is necessary for Sox9 function in embryonic cartilage d...
GSE97027: Cdk8 overexpression effects in heart
Analysis of ventricular derived mRNA from cardiac specific Cdk8 overexpressing mice. Results provid...
GSE113948: Effect of chronic oxycodone self administration (SA) on gene expression in the adult male mouse brain
Examining changes in gene expression in the dorsal and ventral striatum following chronic oxycodone ...
GSE94059: Intergenerational programming of hepatic xenobiotic response by paternal Nicotine exposure
Although it is increasingly accepted that some paternal environmental conditions can influence pheno...
GSE135323: Tissue-engineered bone tumor as a reproducible human in vitro model for studies of anti-cancer drugs
We investigated changes in bone and Ewings Sarcoma transcriptomes among control and treated cells gr...
GSE84993: Niche WNT5A regulates expression of the actin regulatory pathway in regenerating repopulating hematopoietic stem cells
We here show that the niche regulates the quality of the hematopoietic stem cells (HSCs) that are re...
GSE93729: Extensive Functional Redundancy of Mammalian Enhancers [RNA-seq]
Analysis of the transcriptional changes in the limb resulting from the loss Gli3 limb enhancers SOUR...
GSE83222: Phagocytosis imprints heterogeneity in tissue macrophages
Our study identifies the molecular heterogeneity of the populations of tissue resident macrophages t...
GSE97021: Loss of Asxl2 leads to myeloid malignancies in mice. [RNA-Seq]
Total RNA was isolated from mouse Asxl2-/- and WT LK cells following standard protocol with TRIZol r...
GSE93604: Transcriptomes of Nfi deficient and wildtype mouse neocortical tissue at E16
Here, we generated transcriptomes of microdissected neocortex of Nfia knockout, Nfib knockout and wi...
GSE93935: Studying iPSCs from a hibernating mammal reveals molecular mechanisms of cold resistance in neural tissues
To explore the cold resistant feature of ground squirrel neuron cells, we compared transcriptomes of...
GSE137945: Next Generation Sequencing of PKD2 mutant mice
Purpose: Determine the differential gene expression pattern between wildtype, Pkd2-KO and Pkd2-miR-2...
GSE94631: Epigenome comparisons reveal linkage between gene expression and developmental remodeling of chromatin domain topology
We describe a new approach to ChIP-seq analysis in which conservation of nucleosome-scale H3K27me3 t...
GSE92457: Astrocyte-specific transcriptome responses to chronic ethanol consumption
Purpose: Traditional whole-tissue sequencing approaches do not fully capture brain cell-type specifi...
GSE119648: Transcriptome profile of murine endometrial cancer cell lines
Mouse endometrial cancer cell lines with PTEN deletion/mutant KRAS expression (MEC.PK) or MSH2 delet...
GSE111805: Small and large RNA sequencing of mouse livers during development and after miR-122 exicision
miR-122 is a highly-expressed liver microRNA that is activated perinatally and aids in regulating ch...
GSE110736: Next Generation Sequencing Facilitates Quantitative Analysis of transcriptomes of human cord blood CD34+ cells treated with HDAC5 inhibitor
We have used RNA-seq based transcriptome characterization to analyze differentiated gene expression ...
GSE110406: TIP60-dependent acetylation on H2AZ lysine 7 regulates the transcriptional program for genome stability [RNA-seq]
TIP60 mediated acetylation of H2AZ on gene promoter results in change in transcriptional landscape, ...
GSE116971: Whole Transcriptome RNASeq Data for Cell-Sorted Antibody Secreting Cells (ASC)
We report whole transcriptome RNASeq data for cell-sorted pop2, pop3, and pop5 which are antibody-se...
GSE108553: Genome-wide transcriptional profiles of Kupffer cells and alveolar macrophages from nave and LPS-injected mice
To reveal early responses to one of septic agents, lipopolysaccharide (LPS), in tissue resident macr...
GSE111791: Integrin activation controls regulatory T cell-mediated peripheral tolerance
RNA sequencing analysis of Foxp3+YFP+ talin KO Treg cells compared to Foxp3+YFP+ wild-type Treg cell...
GSE110643: The Aged Microenvironment Enhances the Tumorigenic Potential of Malignant Prostate Epithelial Cells
The incidence of prostate cancer is directly linked to age, but we still lack an adequate understand...
GSE117738: Detailed genomic and molecular characterization of Indian induced pluripotent stem cell lines
We report the application of RNA sequencing technology for high-throughput profiling of control iPSC...
GSE94121: The transcriptome of estrogen-independent mammary growth induced by dietary conjugated linoleic acid
RNA sequencing confirmed that both E and CLA increased the expression of genes involved in prolifera...
GSE94925: Hydrogen incubation on the mechanical injury of spinal cord neurons
We report the application of mRNA sequencing technology for high-throughput profiling of genes expre...
GSE129547: Transcriptome Analysis Reveals High Similarities between Adult Human Cardiac Stem Cells and Neural Crest-Derived Stem Cells
Global transcriptome analysis via RNAseq shows a high silimarity between the expression profiles of ...
GSE84137: Vitamin C and L-Proline antagonistic effects capture alternative states in the pluripotency continuum [RNA-Seq]
Samples 1-4 report RNA-seq transcriptome profiling of the L-Proline- (L-Pro) and bFgf/ActivinA- (F/A...
GSE110947: Transcriptomes of Hemin exposed trained monocytes
Innate immune memory is the phenomenon whereby innate immune cells such as monocytes or macrophages ...
GSE92341: Gene expression profiling of KSHV-infected periodontal ligament cells
We reported the potential and mechnism of oral mesenchymal stem cell to become Kaposi Sarcoma progen...
GSE93718: High-throughput sequencing after immunization with pep27 mutant
Purpose; The aim of this study is to find out the difference of gene expression by immunization with...
GSE103074: The Polycomb Repressor Complex 1 Drives Double-Negative Prostate Cancer Metastasis by Coordinating Stemness and Immune Suppression
The mechanisms that enable immune evasion at metastatic sites are poorly understood. We show that th...
GSE129871: Atypical function of a centrosomal module in WNT signalling drives contextual cancer cell motility
Centrosomes control cell motility, polarity and migration that are thought to be mediated by their m...
GSE110417: Exploring the effects of different sample preparation factors on RNA sequencing
We investigated the effects of different sample preparation factors on RNA-seq experiments, includin...
GSE112319: Enhancing Cardiac Cell Proliferation and Survival Suppresses Dilated Cardiomyopathy caused by Ttn-insufficiency
Dilated cardiomyopathy (DCM), defined by left ventricular (LV) enlargement associated with impaired ...
GSE123117: Gene expression profile in Liver of old mice after 5 weeks of Heterocronic parabiosis with Yg WT or Yg MANFHet mice
To ask whether MANF contributes to the rejuvenating effects of heterochronic parabiosis, we generate...
GSE101995: RNAseq of MB49 inoculated tumor-assotiated macrophages from MC-proficient and MC-deficient animals
RNA seq was used to compare the expression profile of macrophages in presence and absense of mast ce...
GSE85450: Next Generation Sequencing Facilitates Quantitative Analysis of Wild Type and Uhrf1-/- fetal liver hematopoietic stem cell (FL-HSCs) Transcriptomes
To investigate the molecular mechanism of Uhrf1 in controlling the self-renewal versus differentiati...
GSE123130: RNA sequencing on primary murine chondrocytes expressing mutant Idh1
We report expression of a mutant Idh1 in murine chondrocytes caused a global change in the gene expr...
GSE93750 (human): Transcriptomics of siCTRL, siNSUN2 and ALYREF-RIP HeLa cells, and multiple mouse tissues
RNA was isolated from siCTRL, siNSUN2 and ALYREF-RIP HeLa cells, and multiple mouse tissues using th...
GSE102880: Differential expression of pancreatic cancer PANC1 cells treated with pilocarpine
Human Panc1 cells were treated with 1mM Pilocarpine and the differential expression measured by RNA...
GSE100925: RNAseq analysis of chemotherapy and radiation therapy-nave breast tumors
Assessment of chemo- and radiation therapy-nave biopsy-confirmed invasive human breast tumors by RNA...
GSE94927: RNAseq of genetically engineered mouse model (GEMM) tumors
We report the expression profiling of lung adenocarcinoma tumors arising from genetically engineered...
GSE92423: Dnmt3a associates with promoters and enhancers to protect epidermal stem cells from cancer [RNA-seq]
The de novo DNA methyltransferase Dnmt3a is mutated in human acute myeloid leukemia, and suppresses ...
GSE115997: Functional In vivo Recording and Single-cell Transcriptome Analysis Reveals Molecular Properties of Light-Sensitive Neurons in Mouse V1
We established a protocol of functional in vivo single-cell transcriptome (FIST) analysis SOURCE: Me...
GSE103183: Transcriptional profiles of female VMHpvlm and VMHpvll
To investigate whether female VMHpvlm and VMHpvll have distinct transcriptional profiles, we conduct...
GSE107423: Next generation sequencing facilitates quantitative analysis of murine high-grade glibablastoma Transcriptomes after VEGF-A blockade In Vivo.
The goals of this study are to compare immunogenic profiling of tumor tissue from GL261 burden mice ...
GSE110487: Whole blood transcriptome analysis of Septic shock patients according to early therapy response
Septic shock is the most severe complication of sepsis, associated with high mortality. The patients...
GSE84164: Derivation of ground-state female ESCs maintaining gamete-derived DNA methylation
Inhibitors of MEK1/2 and Gsk3b, known as '2i' culture conditions, enhance the derivation of embryoni...
GSE92905: Transcriptional profiling of mouse embryonic stem cells without Huntingtin (Htt)
Mutation in the huntingtin (HTT) gene causes Huntingtons disease. Wild type Htt is essential for dev...
GSE112124: Leukaemic alteration of IKZF1 primes stemness and malignancy programs in human lymphocytes
We uncovered upregulated stem cell program in leukaemic lymphoblasts of patients with IKZF1 alterati...
GSE85061: Enforcement of developmental lineage specificity by transcription factor Oct1 (RNA-Seq)
Embryonic stem cells (ESCs) co-express Oct4/POU5F1 and an Oct4 paralog known Oct1/POU2F1. To study t...
GSE93941: MLL2 conveys transcription-independent H3K4me3 in the oocyte
Trimethylation of histone 3 lysine 4 (H3K4me3) is classically thought of as a mark of active promote...
GSE96713: Time-dependent regulation of cellular programming of monocytes by NCOR2 [RNASeq_KD]
Whole transcriptome profiling (RNA-Seq) was performed on human Mo-GMCSF[IL4 (0-72h)] cells with eith...
GSE119628: Epithelial gene expression from a novel mouse model (KPFSR) of pancreatic cancer
This study examines the transcriptional changes invoked in pancreatic ductal adenocarcinoma (PDA) ep...
GSE92936: Roles of Structural maintenance of chromosome flexible domain containing 1 (Smchd1) in early lineage formation and development in mice
The function of Structural maintenance of chromosome flexible domain containing 1 (Smchd1) was exami...
GSE99503: Effect of TUNAR silencing and GSK3 inhibition on human b-cell transcriptome
The aim of the study is to identify the target genes of long noncoding RNA TUNAR in human EndoC-H1 c...
GSE106264: single-cell-RNA-sequencing analysis of naive and Listeria monocytogenes-specific CD8+ T cells
The histone methyltransferase Suv39h1 silences transcriptional programs during CD8+-T cell different...
GSE87003: Myc activation in breast cancer is due to p53-loss and sustains self-renewal of cancer stem cells (RNA-Seq)
Purpose: discover the downstream pathways and the mechanism of target activation by the p53:Myc axis...
GSE90059: RNAseq analysis of AML cells upon lncRNA knockdown
It is well understood how proteins regulate cell fate, both in normal development and disease. Howev...
GSE93939: RNA-seq of laser captured oculomotor, cervical and lumbar spinal motor, and Onufs nucleus motor neurons in post mortem material of control human subjects
Oculomotor neurons, which regulate eye movement, are resilient to degeneration in the lethal motor n...
GSE110558: Single cell transcriptomic analysis (InDrops) of mouse FoxP3- CD4+ Tconv cells and FoxP3+ regulatory CD4+ T cells isolated from spleen and colon [MouseTreg_ColonSpleen1]
Single cell transcriptomic analysis (InDrops) of mouse FoxP3- CD4+ Tconv cells and FoxP3+ regulatory...