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Sequencing-based assays page 22
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GSE122488: Deep sequencing of circulating exosomal microRNA allows non-invasive glioblastoma diagnosis
Background: Safe and sensitive methods for glioblastoma diagnosis and disease monitoring are urgentl...
GSE93774: Quantitative Transcriptome Analysis of the Stomach Neck Mucosa from Control vs Claudin (CLDN)-18 knockout mice.
Purpose: To determine early changes in gene expression that drive gastric cancer development in the...
GSE94042: Microglial repopulation rewires and rejuvenates the aged brain
Changes in microglial form and function contribute to age-related cognitive impairment. Developing m...
GSE100954: Quantitative analysis of WT, Dnmt3a-/-, Dnmt3b-/- and Tet1-/- J1 ES cell transcriptomes
In order to figure out the roles of Dnmt3 and Tet1 in gene regulation, we assessed global gene expre...
GSE85491: RNA-SEQ analysis of the superficial, intermediate and basal cell layers of the bladder urothelium 24h after infection with UTI89 strain of E.coli and their adult female non-UTI controls.
Dissection and FACS cell sorting techniques were used to isolate the superficial, intermediate and b...
GSE92535: ETV2 cooperates with SCL for timely gene activation during hemogenic endothelium specification [RNA-Seq]
By RNA sequencing, we report here some hemato-vascular genes could be induced and some mesodermal/ c...
GSE112698: Mouse embryonic stem cells (mESCs) differentiation towards ventral hindbrain neuronal cell types [d0-d3.5]
mESCs treated with retinoic acid (RA) and a Shh agonist (SAG) recapitulated ventral hindbrain develo...
GSE132662: Single Cell RNA Sequencing Identifies Subsets of Hepatic Stellate Cells and Myofibroblasts in Liver Fibrosis
Hepatic stellate cells and activated myofibroblasts display a high heterogeneity in healthy and fibr...
GSE127204: LncRNA/mRNAs expression profiling in a mouse model of age-related hearing loss
The goals of this study are to identify transcripts that participate in the development of age-relat...
GSE109369: Small-molecule-based Human Genome G4 Profiling Reveals Potential Gene Regulation Activity
G-quadruplexes (G4s) are a type of secondary structure of nucleic acids, the formation of which depe...
GSE102858: A molecular roadmap of the aorta-gonad-mesonephros region reveals BMPER as a novel regulator of HSC maturation [OP9]
In the developing embryo, haematopoietic stem cells (HSCs) emerge from the aorta-gonad-mesonephros (...
GSE112101: RNA-seq of nine primary human cell types exposed in vitro to methylprednisolone
Glucocorticoids remain the most widely used class of anti-inflammatory and immunosuppressive agents....
GSE136103: Resolving the fibrotic niche of human liver cirrhosis using single-cell transcriptomics
We profile the transcriptomes of over 100,000 human single cells, yielding molecular definitions for...
GSE127730: Neural Progenitor Cell Gene Expression In Response To CBP(S436A) mutant
The histone acetyltransferase, CREB binding protein (CBP), is important for appropriate differentiat...
GSE114829: Prediabetes Induced by a Single Autoimmune B cell Clone [RNA-seq]
SCNT-derived B cell model displays spontaneous germinal center reaction, infiltration of pancreas (i...
GSE92991: Gene expression in the ileum of Cftr null mice
Transcriptome sequencing was performed on ileum of Cftr null mice and wildtype littermates SOURCE: M...
GSE91078: Deletion of Gas2l3 in mice leads to specific defects in cardiomyocyte cytokinesis during development
Mammalian cardiomyocytes lose the ability to proliferate shortly after birth. This accounts for the ...
GSE92560: Loss of JNK in Breast Epithelium Accelerates Tumor Formation
Members of the JNK pathway have been found to be mutated in human breast cancer. Mouse studies exami...
GSE112740: RNA sequencing of brown adipose tissue of lean and obese mice
We report differential expressed genes in brown adipose tissue of mice fed with a low-fat diet or a ...
GSE98679: Hippocampal single-nucleus sequencing identifies a unique transcriptional signature that is predictive of reactivity in dentate granule neurons
Neuronal circuits are constantly remodeled in response to activity, but the extent and the specifici...
GSE110903: RNA-seq profiling identifies Androgen Receptor-regulated genes in prostate cancer cells
The goal of this analysis is to profile AR-regulated genes, especially non-coding RNAs in three andr...
GSE112896: CTLA4-Ig changed the gene expression associated with cellular movement in osteoclast precursors
To explore comprehensive gene expression changes, we performed an RNA sequence analysis of CX3CR1-EG...
GSE111084: A20 regulates canonical wnt-signaling through an interaction with RIPK4
The role of A20 in regulating canonical wnt signaling was investigated in colon cancer cell lines (R...
GSE111877: The role of the bHLH factor E47 in modulating hepatic glucocorticoid receptor action (metabolism) [RNA-seq]
We performed RNA sequencing in different wildtype and E47ko tissues in response to treatment with gl...
GSE106528: Translatome analysis of the ribosomal protein L10 R98S mutation reveals altered serine metabolism in acute lymphoblastic leukemia [PolySeq]
Somatic ribosomal protein defects have recently been described in cancer, yet their impact on cellul...
GSE96991: Integrated target discovery screens identify IL11 as novel therapeutic target for fibrosis [mouse]
Cardiac fibrosis is the final common pathology in heart disease. Here we establish an integrated ima...
GSE92548: RNA-seq profiles of wildtype and Ezh2 knockout mouse natural killer T cell subsets
Natural killer T (NKT) cells identified by CD1d-tetramer and TCRb were isolated from the thymi of wi...
GSE93753: Gene expression profiling of cardiomyocyte-enriched populations isolated from G9a-KO and Cre mice
The role of the histone mehyltrasferase G9a (also known as Ehmt2) in heart has not been extensively...
GSE109976: Human cytotrophoblast organoids
Human cytotrophoblast organoid cultures were established from the villous trophoblast of first trime...
GSE102824: Transcriptomic analysis of transferrin protective effect during retinal detachment in mice
Transcriptomic analysis of transferrin protective effect during retinal detachment in mice. SOURCE: ...
GSE114992: IRF5 regulates unique subset of genes in mouse dendritic cells during West Nile virus infection (RNA-Seq)
Using integrative bioinformatics analyses, we identified new IRF5 primary target genes in mouse DCs ...
GSE111833: RNA-seq analysis of visceral fat Treg signature genes in aged WT and PPARg-2KR mice.
We investigated PPARgamma deacetylation in regulating visceral fat Treg cell transcriptomes SOURCE: ...
GSE117771: RNA-seq analysis regarding adrenal gland contribution in mouse steroid synthesis
The adrenal glands of mice are derived from an experiment with two study groups: Intact and orchiect...
GSE92364: Roles of activating transcription factor 4 in the murine response to asparaginase in liver.
In liver, the anti-leukemic agent asparaginase (ASNase) increases phosphorylation of eukaryotic init...
GSE93750 (mouse): 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...
GSE95343: mRNAseq of Huntington's disease and control patient iPSC-derived neural cells
Purpose: The goals of this study are to compare the transcriptomic profile (mRNA-seq) of HD and con...
GSE100694: Ezh2 and Runx1 Mutations Collaborate to Initiate Lympho-Myeloid Leukemia in Early Thymic Progenitors [Human cell line RNA-seq]
Understanding the specific cell populations responsible for propagation of leukemia is an important ...
GSE91067: Epigenomic rescue of genetically defective Ucp1 expression in subcutaneous fat of C57BL/6 mice [RNA-Seq]
Obesity causes insulin resistance, and PPAR ligands like rosiglitazone (rosi) are insulin-sensitizin...
GSE97744: Directed differentiation of human pluripotent stem cells to microglia
Microglia, the immune cells of the brain, are crucial to proper development and maintenance of the c...
GSE96982: Single-cell RNAseq analysis of the empty and i8TF cell lines after 3 days of BL-CFC culture
The aim of the experiment was to assess the cell heterogeneity after the doxycycline treatment and t...
GSE107527: Single cell transcriptome datasets of murine B cell commitment
To identify the time-lapse TF networks during B lineage commitment, we established multipotent proge...
GSE112066: Regulation of follicular T-helper cell positioning and function by PD-1
Follicular T-helper (TFH) cells highly express the programmed cell death-1 (PD-1) molecule. Whereas ...
GSE92395: Neural precursor cell-secreted TGF-2 subverts the inflammatory program of invading monocyte-derived dendritic cells during CNS autoimmunity
In Multiple Sclerosis, the pathological interaction of autoreactive helper T (TH) cells with mononuc...
GSE85763: RNA-seq analysis of Akt1-mediated muscle growth
Background: Skeletal muscle constitutes a significant portion of total body mass and is a major regu...
GSE111232: Mouse Embryo Sox1 cre-dependent knockout of EED
Floxed EED homozygote mice are knocked-out by Sox1-driven Cre to remove H3K27me3 during neurogenesis...
GSE89695: A transposon sensor during epigenetic reprogramming consists of pervasive transcription and endosiRNAs in mouse ES cells [RNA-Seq]
DNA methylation and other repressive epigenetic marks are erased genome-wide in mammalian primordial...
GSE92574: Mapping of DHT-responsive or -independent AR-binding sites induced by activated Src in prostate cancer cell lines [RNA-seq]
Building on the observation that metastatic, castration-resistant prostate cancer (CRPC) correlates ...
GSE85727: Decoding the Long Noncoding RNA during Cardiac Maturation: a Roadmap for Functional Discovery [RNA]
Cardiac maturation during perinatal transition of heart is critical for functional adaptation to hem...
GSE94963: Human Adult Sorted Live Cell Erythroblasts transduced with Sigma shRNA Clone TRCN0000162889 targeting SLC25A39 with puromycin selection RNAseq.
Erythroblasts cultured from mobilized CD34+ cells from six healthy adult human donors were used to g...
GSE114738: Genes regulated by soluble guanylyl cyclase in VCaP prostate cancer cells
The aberrant activation of the ERG oncogenic pathway due to TMPRSS2-ERG gene fusions is the major dr...
GSE97804: Sex-specific differences in the pulmonary transcriptome in neonatal hyperoxic lung injury
Changes in the pulmonary transcriptome in male and female mice on PND7 and PND21 exposed to room air...
GSE101705: Existing blood transcriptional classifiers accurately discriminate active tuberculosis from latent infection in a South Indian cohort
We report the accuracy of various existing blood transcriptional signatures in distinguishing TB and...
GSE110853: RNA-seq of SCLC PDX models treated with EP
We report the correlation of transcript abundance with response to EP in 19 PDX models of SCLC SOURC...
GSE102228: Use of RNA sequencing to assess the expression patterns of microbial metabolite transporters present in children post-transplant with and without GVHD
We report the expression of microbial metabolite tranporters in mucosal biopsies from children with ...
GSE111747: Different neuronal activity patterns induce different gene expression programs [RNA-Seq]
A vast number of different neuronal activity patterns could each induce a different set of activity-...
GSE107600: Transcriptomic profiling of human HAP1 cells before and after nutrient deprivation
Autophagy is a lysosomal degradation pathway critical for maintaining cellular homeostasis and viabi...
GSE87046: Sox11 expression in adult retina promotes regeneration of some ganglion cell types but kills others
At least 30 types of retinal ganglion cell (RGC) send distinct messages through the optic nerve to t...
GSE103314: RNA-seq (Nova2-cKO, Nova2-KO, Nova2.Ptbp2-dKO)
We sequenced RNA from adult mouse spinal cord and from cell sorted Nova2-cKO neurons (crossed with E...
GSE113694: Loss of TET2 and TET3 in regulatory T cells unleashes effector function
We studied the effects of loss of TET proteins in regulatory T cells in mice and compared the transc...
GSE106336: Transcriptional changes in pancreatic cancer cells associated with gemcitabine resistance
The goal of this study was to determine the transcriptional changes in pancreatic cancer cells after...
GSE114157: Insights into the Biology of Hearing and Deafness Revealed by Single-Cell RNA Sequencing
The goal of this study was to isolate individual cochlear hair cells and supporting cells from wild ...
GSE131264: Cell-autonomous FLT3L shedding via ADAM10 mediates conventional dendritic cell development in mouse spleen
To characterize the changes that had occurred in splenic pre-cDCs in the absence of ADAM10, we perfo...
GSE112940: ID1 mediates escape from TGF Tumor Suppression in Pancreatic Cancer
We perform ChIPseq, ATACseq, and RNAseq to characterize the role of ID1 in PDA cells. SOURCE: Joan M...
GSE93553: miR-93-5p is a bona fide Oncodriver Targeting both Classical and Epigenetic Tumor Suppressive Pathways in Liver Cancer
Purpose: The goals of this study are to compare the transcriptome profiling among LEPC-Control, LEPC...
GSE111664: Drop-seq analysis of bleomycin-treated and control mouse lung single-cell suspensions
Cell suspensions were prepared from mouse lungs dissociated at baseline or 14 days after intratrache...
GSE82192: Specific and redundant roles of TEAD transcription factors in C2C12 cell and primary myoblast differentiation (RNA-Seq)
Defining the function of TEAD transcription factors in myogenic differentiation has proved elusive d...
GSE117829: Development and Validation of a Simplified Method to Generate Human Microglia from Pluripotent Stem Cells
Comparison of published protocol (Abud et al. Neuron 2016) to simplified method of microglial differ...
GSE104341: The Peril DNA locus acts as an in vivo enhancer for distal but not proximal genes
(1) We have performed a massively parallel reporter assay (MPRA) in C2C12 cells. Additionally, we ha...
GSE114704: Transcriptional dissection by single-cell RNASeq analysis of the metastasis settings from a highly metastatic Patient-Derived Xenograft model of pancreatic ductal adenocarcinoma
Single cells were isolated from the main scenarios during tumor dissemination of a highly metastatic...
GSE95359: Next Generation Sequencing of Wild Type and LXR-Ser196 phosphorylation deficient Murine Hepatic Transcriptomes on a High Fat/High Cholesterol Diet
Liver X Receptors (LXR and ) are ligand-activated transcription factors that play a key role in the ...
GSE114158: F1 hybridization effects on mouse oocytes
This dataset consists of germinal vesicle (GV) and metaphase II (MII) oocytes from B6, D2, and B6xD2...
GSE148412: RNA sequencing data of microglia isolated from brains of WT, Hexb-tdTomato, Hexb-CreERT2 and Hexb-KO mice. {Reporter]
RNA sequencing of FACS sorted microglia isolated from brain tissue of WT, Hexb-tdTomato, Hexb-CreERT...
GSE112386: Polycomb repressive complex 1 (PRC1) role in skin epithelium development [HF]
Polycomb repressive complexes (PRC) 1 and 2 are essential chromatin regulators of cell identity. PRC...
GSE93748: Identification of target genes of TAZ in the prostate cancer cells
We found that the transcriptinal co-activator TAZ is a basal cell marker for the prostate epithelium...
GSE116470: A Single-Cell Atlas of Cell Types, States, and Other Transcriptional Patterns from Nine Regions of the Adult Mouse Brain
We report 690K single-cell transcriptomes from nine different brain regions from adult mice (Frontal...
GSE111230: Induced pluripotent stem cells of patients with Tetralogy of Fallot reveal transcriptional alterations in cardiomyocyte differentiation
We generated induced pluripotent stem cells (iPSCs) of two patients with Tetralogy of Fallot (TOF) a...
GSE111291: NSD2 is an actionable driver of prostate cancer metastasis
Analysis of transcriptome of FACS isolated cancer cells from prostate primary tumors and metastasis ...
GSE139905 (human): Transcriptome upon PDXK knock-out in mouse and human leukemic cells
To study transcriptomic changes upon PDXK knock-out in mouse and human leukemic cells SOURCE: Yu-Jui...
GSE134401: Effect on small molecule RBPJ inhibitor (RIN1) on gene expression in Jurkat cells compared to gamma secretase inhibition and siRNA knockdown of RBPJ
We discovered a new class of small molecule inhibitor that disrupts the interaction between NOTCH an...
GSE113171: Mapping multi-layered regulation in response to environmental stress
We have mapped transcript and protein concentrations in cervical cancer cells responding to treatmen...
GSE82158: Ontogeny of alveolar macrophages is a critical determinant of function during lung fibrosis [RNA-seq]
Little is known about the relative importance of monocyte and tissue-resident macrophages in the dev...
GSE114516: Gene expression profiling of hematopoietc stem cells from heterozygous Asxl1 KI mice
We performed RNA-seq with SOURCE: Masahiro Uni (uni-tky@umin.ac.jp) - Graduate School of Medicine, ...
GSE127948: HDAC inhibition enhances the in vivo efficacy of MEK inhibitor therapy in uveal melanoma
Purpose: The clinical use of MEK inhibitors in uveal melanoma is limited by the rapid acquisition of...
GSE98485: A SRp55-regulated alternative splicing network controls pancreatic beta cell survival and function
Progressive failure of insulin-producing beta cells is the central event leading to diabetes, yet th...
GSE99539: Phase Separation of Ligand-Activated Enhancers Licenses Cooperative Chromosomal Enhancer Assembly [Gro-Seq]
Detailed analysis of estrogen mediated enhancer landscape and chromosomal architectural changes spec...
GSE118901: Transcriptional analysis of whole blood and PBMCs from human HOIP deficiency patients
LUBAC (linear ubiquitin assembly complex) consists of HOIP, HOIL1 and SHARPIN. HOIP deficiency has b...
GSE117074: Effect of BMP2 on B16F10 melanoma cells
BMP2 treatment significantly reduces growth of B16F10 melanoma spheroids. This experiment analyses t...
GSE117910: Examining serotonergic neuron differentiation from human iPSCs
The goals of this study were to study serotonergic neuron differentiation from patient derived iPSCs...
GSE112593: RNASeq Analysis of Gene Expression in Nave and Regulatory CD4+ T cells from Wild Type and YAP-deficient mice
Regulatory T cells (Tregs) are critical for maintaining self-tolerance and immune homeostasis, but t...
GSE92575: Transcriptional plasticity, priming and commitment in hematopoietic lineages [RNA-seq]
Differentiation of adult hematopoietic stem cells (HSC) constantly produces the cell types of the bl...
GSE113009: Next Generation Sequencing (NGS) of expression profile from unstimulated and LPS stimulated bone marrow derived macrophages from control and BRD4 conditional KO mice
Method: mRNA profiles were generated from pair-end sequencing of duplicate samples using Illumina ...
GSE95299: Overexpression of NFIB and YBX1 in MCF-7 cells
Studying transcription factor (TF) interactions and gene regulatory networks in breast cancer, we ha...
GSE98545: Transcriptome signature identifies distinct cervical pathways induced in lipopolysaccharide-mediated preterm birth
Cervical inflammasome activation and subsequent protease upregulation are potential mechanisms of do...
GSE106548: Transcriptomic Profiling of Human and Mouse Kidneys
RNA-seq of human and mouse kidneys reveals both known and uncharacterized alternative transcripts de...
GSE103798: Characterization of the ALK7 signaling pathway in PanNET, using cell lines that either express dominant negative ALK7 (ALK7-DN), or subjected to ALK7 knock-down (shALK7), treated with activin B
Herein we report that the TGF superfamily receptor ALK7 is a suppressor of tumorigenesis and metasta...
GSE114943: Light can synchronise peripheral clocks autonomously from each other [darkness experiment (DD)]
Organisms have adapted to the changing environmental conditions within the 24h cycle of the day by t...
GSE112347: Cellular collectivity and its effect on early CD4 T cell memory differentiation
Cellular collectivity and its effect on T cell memory formation. Two experiments were performed: 1) ...
GSE113069: The subiculum is a patchwork of discrete subregions
Subiculum pyramidal cells constitute a prominent output neuron class of the hippocampus. Here, we ex...
GSE113045: ONECUT2 is a putative oncogene associated with CpG hypomethylation at promoter-proximal DNA in gastric cancer and triggers ACSL5, a member of the ACS family
To access methylation change during gastric carcinogenesis in this study, we performed RRBS analysis...
GSE112796: Foxf2 plays a dual role during TGFb-induced EMT by promoting apoptosis yet enabling cell junction dissolution and migration.
We have identified the transcription factor forkhead box protein F2 (Foxf2) to be upregulated in its...