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Sequencing-based assays (Page 24)
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GSE122376: Comparative analysis of mouse decidualization models by using RNA-seq
There are three well-established mouse models of decidualization: natural pregnancy decidualization ...
GSE113465: Evaluation of HSP90 inhibitor expsosure on Immune Cell Gene Expression
We report RNA-sequencing analysis of human peripheral blood mononuclear cells exposed to clinically ...
GSE94388: RNA editing is the essential function of ADAR1 and, in the absence of MDA5, is dispensable for normal adult homeostasis [RNAseq (Fetal Brain)]
Adenosine-to-Inosine (A-to-I) editing of dsRNA by ADAR proteins is a pervasive feature of the epitra...
GSE97213: Single Cell and Open Chromatin Analysis Reveals Molecular Origin of Epidermal Cells of the Skin
Skin and its appendages such as hair follicle and sweat gland are formed by Keratin-5 expressing (Kr...
GSE113756: Response of Hepatocytes to CCl4 Injury and Yap/Taz Knockout
Assessment of Hepatocytes in response to Yap/Taz knockout and also CCl4 injury SOURCE: Rory Kirchner...
GSE109684: Transcriptional activation by E2F4 independent of the RB family
E2F transcription factors are central regulators of cell cycle progression and cell fate decisions i...
GSE97412: Expression analysis of INO80 complex in HepG2 liver cancer cells [RNA-seq]
We carried out two sets of experiments to understand how the INO80 complex affected gene expression....
GSE106288: Human MAIT cells exit peripheral tissues and re-circulate via lymph in steady state conditions
Mucosal-associated invariant T (MAIT) cells recognize bacterial metabolites as antigen and are found...
GSE113594: Distinct macrophage populations upon physiological changes in adipose tissue [RNA-seq]
We report that obese fat tissue of mice contain multiple distinct populations of adipose tissue macr...
GSE87602: Activation of Lung Macrophages in Hypoxic Pulmonary Hypertension
Studies in various animal models suggest an important role for pulmonary macrophages in the pathogen...
GSE92250: A cell cycle-based functional screen to identify lncRNA-based cancer biomarkers
We report S-phase cancer associated lncRNAs which were identified using nascent RNA capture assay in...
GSE115193: Evaluating pre-clinical models for studying NASH driven HCC.
We sequenced liver biopsy tissue from healthy, patients with NAFLD and patients with NASH SOURCE: Sa...
GSE125596: Transcriptome-wide profiling of thyroid hormone-dependent gene expression in the mouse heart
During the first weeks after birth, cardiomyocytes within the mouse heart progressively exit the cel...
GSE117936: Comparative bulk RNAseq analysis of Control and PTH/PTHrP recepter-deficient PTHrP+ dental follicle cells
Lack of PTH/PTHrP receptor in PTHrP+ dental follicle cells causes a cell fate shift and premature di...
GSE99101: Enhancer-binding of Brd4 controls cell differentiation
The epigenomic reader Brd4 is an important drug target for cancers. However, its role in cell differ...
GSE97461: TRAP sequencing of D1 and D2 spiny projection neurons from young and old mice
The aging brain encounters various cellular, molecular, and metabolic changes, which can differentia...
GSE115423: Transcriptome analysis of the HepG2 cells expressing hepatic transcription factors
In order to elucidate an anticancer function of some hepatic transcription factors (TFs), we induced...
GSE113636: Transcriptome analysis of Zika infected neural stem cells
RNA-seq was utilized to characterize the transcriptome of human neural stem cells infected with Zika...
GSE98596: NMuMG cell response to TGF-beta and TGF-beta +2APB treatments
Recent studies demonstrate that Ca2+ signaling has an important role in EMT. Use of Ca2+ blockers su...
GSE113400: Determine the role of TXNDC9 in hepatocellular carcinoma progression
Thioredoxin Domain Containing 9 (TXNDC9) is a member of the thioredoxin family. The exact function ...
GSE135922: Single-cell transcriptomics of the human retinal pigment epithelium and choroid in health and macular degeneration
Purpose: The goals of this study were to identify cell specific expression patterns of the retinal p...
GSE100528: METTL3-mediated m6A modification is required for cerebellar development m6A modification and cerebellar development
N6-methyladenosine (m6A) RNA methylation is the most abundant modification on mRNAs and plays import...
GSE97214: Transcriptome sequencing identify a recurrent CRYL1-IFT88 chimeric transcript in hepatocellular carcinoma
We performed transcriptome sequencing for hepatocellular carcinoma (HCC) and adjacent non-tumorous t...
GSE121299: RNA-seq of in vitro produced mouse oocytes derived from XX-, XO- and XY-ESCs
We analyzed the transcriptome of in vitro oocytes induced from Embryonic Stem cells (ESCs) via Epibl...
GSE99116: Multiomics Profiling Establishes the Polypharmacology of FDA-Approved CDK4/6 Inhibitors and the Potential for Differential Clinical Activity.
We compared three CDK4/6 inhibitors that have recently emerged as highly promising agents for advanc...
GSE96641: Genome-wide Screen for Differentially Methylated Long Noncoding RNAs identifies Esrp2 and lncRNA Esrp2-as Regulated by Enhancer DNA Methylation with Prognostic Relevance for Human Breast Cancer
The majority of long noncoding RNAs (lncRNAs) is still poorly characterized with respect to function...
GSE114472: OGT knockout S2VP10 cells
Pancreatic Cancer cells were transfected with CRISR based OGT knockouts SOURCE: Nikita,Satish,Sharma...
GSE115349: Type 1 interferon signaling is crucial from the loss of tolerance nd the development of autoreactive B cells.
The transcriptomes of FACS-sorted B220+GL7+CD95+ germinal center B cells and B220+GL7-CD95- non-germ...
GSE112361: Gene expression analysis in lungs of Mtb infected Fth+/+ and Fth-/- mice by employing RNA-Seq
Next-generation sequencing (NGS) has revolutionized systems-based analysis of cellular pathways. The...
GSE94444: SETDB1 depletion in primed or nave ES cells
Endogenous retroviruses (ERVs), which are responsible for 10% of spontaneous mouse mutations, are ke...
GSE16256: UCSD Human Reference Epigenome Mapping Project
The human embryonic stem cells (hESCs) are a unique model system for investigating the mechanisms of...
GSE40969: Molecular profiling of activated neurons by phosphorylated ribosome capture [RNA-Seq]
We report that phosphorylated ribosomes can be immunoprecipitated from mouse brain homogenates, resu...
GSE46562: RNA-seq in neurons derived from iPSCs in controls and patients with schizophrenia and 22q11 del
Induced pluripotent stem cell (iPSC) technology presents a unique opportunity to model schizophrenia...
GSE38841: Selective Functions of Individual Zinc Fingers Within the DNA-Binding Domain of Ikaros (RNA-seq: BCR-ABL transformed in vitro cell culture cells)
The C2H2 zinc finger is the most prevalent DNA-binding motif in the mammalian proteome, with DNA-bin...
GSE121589: Dissecting the Individual and Collective Regenerative Behavior of Muscle Stem Cells During Aging
We utilize an integrative genomics approach (bulk RNA-Seq, ATAC-Seq, single-cell RNA-Seq) to show h...
GSE39884: Small RNAs in undifferentiated and differentiating mouse embryonic stem cells
We report the identification of small RNAs in undifferentiated (d0) and differentiating (d4) mouse e...
GSE55275: Activin A and BMP4 Modulation of Wnt/-catenin Signaling Directs Fate Specification of Mesoderm Derivatives from Human Embryonic Stem Cells
We report the derivation of 2 different methods of generating cardiac myocytes from human ESCs. The ...
GSE54006: Massively parallel single-cell RNA-Seq for dissecting cell type and cell state compositions
In multi-cellular organisms, biological function emerges when cells of heterogeneous types and state...
GSE61505: RNA-Seq in hair follicle stem cell lineage
We performed RNA_Seq on purified hair follicle stem cells (HFSCs)and their direct progenty, transit ...
GSE60630: RNA-Seq to assess the transcriptional effects of G quadruplex stabilization by the G4 ligand PhenDC3 in HT-1080 cells
G quadruplex motifs are frequently located near TSS and in the first introns of transcribed genes. W...
GSE32916: Analysis of Pro-Inflammatory Gene Activation and RNA Processing by RNAseq of Nascent Transcripts I
We examined pro-inflammatory gene activation in activated murine macrophages by performing RNA-Seq w...
GSE35126: Effects of Cardiac Glycosides on RNA Expression in Prostate Cancer LNCaP-abl Cells
Prostate cancer is the most common cancer in men and cardiac glycosides inhibit prostate cancer cell...
GSE95428: NAFLD in IL-4 and IL-10/4 KO Mice
Whole liver RNA isolated from wild type, IL-4 knockout and IL-10/4 double knockout mice on normal or...
GSE57415: Molecular architecture of transcription factor hotspots in early adipogenesis
Here, we have used digital genomic footprinting to precisely define protein localization for several...
GSE60050: Gene expression alteration in Dnmt3aKO-Idh2 mutant double mutant HSPCs
We assessed global gene expression changes in Dnmt3aKO-Idh2 mutant HSPCs in comparison with the mega...
GSE30839: RibosomeProfilingof Mouse Embryonic Stem Cells Reveals the Complexity of Mammalian Proteomes
The ability to sequence genomes has far outstripped approaches for deciphering the information they...
GSE32302: Genome-wide maps of polyadenylation sites in OPMD-model and control mice
We applied deep-sequencing based technique, 3'-Seq, to obtain comprehansive maps of poly-A sites in ...
GSE106302: Hippocampal gene expression from Nr2f1 heterozygous knockout and WT mice
Differential gene expression in the adult hippocampus of Nr2f1 heterozygous knockout mice. SOURCE: A...
GSE41658: Methylomic analysis identifies the involvement of migration and adhesion genes in the ageing of primary haematopoietic stem cells
we utilize Nano-MeDIP-seq for the analysis of the LT-HSC methylome and, for the first time, simultan...
GSE58495: Quantitative Analysis by Next Generation Sequencing of LSK (Lin- Sca1+ cKit+) hematopoietic progenitors and splenic B cells (naive and in vitro LPS activated) transcriptomes from Wild Type and Usp3-/- mice
Purpose: the goal of this study is to investigate the consequences of USP3 deletion on gene expressi...
GSE41785: Global analysis of Upf1 in mESCs reveals expanded scope of nonsense-mediated mRNA decay
Nonsense-mediated mRNA decay (NMD) is a conserved RNA surveillance pathway that is an important modu...
GSE39812: Tryptamine Serves As a Proligand of the AhR Transcriptional Pathway, and the Activation Is Dependent of Monoamine Oxidases
In this study we show that physiological concentrations of tryptamine (TA) lead to induction of cyto...
GSE36025: Long RNA-seq from ENCODE/Cold Spring Harbor Lab
This data was generated by ENCODE. If you have questions about the data, contact the submitting labo...
GSE44573: Next Generation Sequencing Analysis of Wild Type and Hypomorphic Nkx2-5 mutant heart Transcriptomes
We report the transcriptome analysis of E11.5 mouse embryonic heart presenting a reduction in Nkx2-5...
GSE73376: DGCR8 acts as a novel adaptor for the exosome complex to degrade double-stranded structured RNAs
The Microprocessor complex (DGCR8/Drosha) is required for microRNA (miRNA) biogenesis but also binds...
GSE57206: The role of HIF-1 in beta-glucan induced response in myeloid cell
beta-glucan induced glycolysis in HIF-1 depedent manner. We reported that beta-glucan injection in m...
GSE40548: RNAseq analysis of the human neutrophil transcriptome, with and without in vitro cytokine stimulation
We report cytokine specific changes in gene expression in the human neutrophil transcriptome using T...
GSE95712: Bmal1 regulates inflammatory response in macrophage
Deletion of Arntl disrupted temporal inflammatory response in macrophage. Mechanistically, the acety...
GSE35724: Comprehensive analysis of four in vitro insulin resistance models
Diet-induced obesity predisposes individuals to insulin resistance, and adipose tissue has a major r...
GSE115384: RNA-seq CELSR2 knockdown vs NTC
RNA-seq experiments in two B-lineage leukemia cell lines (NALM6 and 697) either 0hr prednisilone tre...
GSE122767: Genetic AMPK activation in liver protects against diet-induced obesity and NAFLD
We developed a GEMM in which AMPK can be inducibly activated in vivo (iAMPK mice). We provide here t...
GSE36026: RNA-seq from ENCODE/LICR
This data was generated by ENCODE. If you have questions about the data, contact the submitting labo...
GSE44668: Genome wide RNA-seq analysis of E14.5 Smchd1 wild type and mutant placenta
We report the deregulation of expression in Fi (C57Bl6/J x FVB/n) E14.5 male mouse placenta are that...
GSE95802: Celecoxib, Rofecoxib Chronically Treated Mice, Aorta RNA-Seq
Celecoxib, Rofecoxib Chronically Treated Mice, Aorta RNA-Seq SOURCE: Gregory,Robert,Grant (ggrant@up...
GSE121132: Analysis of Grp78 deficiency in lung epithelial type 2 cells.
RNA-Seq reveals activation of ER stress/UPR signaling and impaired cell function in Grp78 KO AT2 cel...
GSE126653: RNA-sequencing facilitates Quantitative Analysis of Wild Type and Tsg101 Transgenic cardiac transcriptomes
Tumor susceptibilty gene 101 (Tsg101) is a key member of the endosomal sorting complex required for ...
GSE121103: Epigenomic and transcriptomic analyses of epithelial ovarian cancer
Profiling of active chromatin and gene expression in primary ovarian cancer specimens SOURCE: Kate L...
GSE40463: STATs Shape the Active Enhancer Landscape of T Cell Populations
Signaling pathways are intimately involved in cellular differentiation, allowing cells to respond to...
GSE107801: Enhanced pre-clinical anti-tumor activity of M7824, a novel bifunctional fusion protein simultaneously targeting PD-L1 and TGF-
EMT-6 orthotopic tumors were grown in Balb/C mice. Mice were randomized into one of four treatment ...
GSE127530: NCBI GEO Submission of human whole blood transcriptomes in response to a high-fat meal
Modern humans spend most of their time having eaten recently. The purpose of the current project is ...
GSE46916: RNA-seq of Danio rerio and Mus musculus skin for three different age groups
Background: Comparison of temporal gene expression profiles (www.jenage.de); The RNA-seq data compri...
GSE60283: Impact of HP1gamma and HP1gamma S83 phosphorylation on the transcriptionnal effect of PMA stimulation of mouse fibroblasts
We have here followed the transcriptional effect of stimulation with the phorbol ester PMA in mouse ...
GSE37211: DPN and Tamoxifen treatments of parathyroid adenoma cells
Stimulation of estrogen receptor beta in PHPT, genetic changes after 24 and 48h of treatments vs. Co...
GSE99166: Transcriptome analysis of CD4+ T cells differentiated from wild-type and CD4cre IRF8flox mice
We report that the Th9 differenciation program is alterated in absence of IRF8 protein SOURCE: Romai...
GSE109293: Transcriptome of Dp1Tyb and wild-type mouse embryonic fibroblasts
Purpose: to identify the effects of the Dp1Tyb mutation on the transcriptome of mouse embryonic fibr...
GSE121305: RNA-seq of colon tissue from wild type and Elf4-/- mice with colitis
ELF4 is a transcription factor, and to identify its potential targets, the inflamed colons of wild t...
GSE108526: IRF5 and IRF3 regulate distinct immune programs in plasmacytoid dendritic cells
Transcriptomic analyses of pDCs show that the partitioning of TLR/IRF5 and RLR/IRF3 pathways confers...
GSE39513: Regulation of pluripotency and self-renewal of ES cells through epigenetic-threshold modulation and mRNA pruning
The core pluripotency factors (Oct4, Sox2, and Nanog), the Myc network, and the chromatin-modifying ...
GSE37918: RNA-seq in breast cancer cell lines after manipulation of miR-23b expression
RNA sequencing technology has been carried out in order to evaluate mRNA expression changes after ma...
GSE94481: DUSP9 is a dose-dependent, X-linked modulator of female DNA hypomethylation in mouse pluripotent stem cells
Blastocyst-derived embryonic stem cells (ESCs) and gonad-derived embryonic germ cells (EGCs) represe...
GSE42004: Spermatogenesis
In animal germline cells, Piwi-interacting RNAs (piRNAs) silence retrotransposons through post-trans...
GSE38393: Hi-seq 2000 sequencing facilitates quantitative analysis of transcriptomes in LNCaP cells with or without SiGATA2 treatment.
We obtained 1,367 GATA2 up-regulated and 759 GATA2 down-regulated genes (p< 0.001). SOURCE: Zhenqing...
GSE39121: Lung adenocarcinoma metastasis is suppressed by the alveolar lineage transcription factors GATA6 and HOPX.
Molecular programs that mediate normal cell differentiation are required for oncogenesis and tumor c...
GSE72941: RNA-seq analysis reveals profound changes in transcript profiles between siCon- and siH19-transfected myotubes
We used high throughput sequencing to analyze the transcriptional profiling of myotubes. By comparin...
GSE43726: RNA-sequencing (RNA-seq) in breast cancer cell lines after ectopic manipulation of miR-26a expression
RNA sequencing technology has been carried out in order to evaluate mRNA expression changes after ma...
GSE39918: Next-generation sequencing facilitates quantitative analysis of wild type and Bmp4f/f;Wnt1Cre tooth mesenchyme transcriptomes
Previous studies have suggested that Bmp4 is a key Msx1-dependent mesenchymal odontogenic signal for...
GSE58746: Transcriptional response to stress in serum deprived mouse fibroblasts in the presence of MSK1/2 inhibitor.
We have employed gene expression profiling in order to identify targets of transcriptional response ...
GSE72915: Chromatin-remodelling complex NURF is essential for differentiation of adult melanocyte stem cells
MIcrophthalmia-associated Transcription Factor (MITF) regulates melanocyte and melanoma physiology. ...
GSE95701: Genomic characterization of murine monocytes reveals C/EBPb dependence of Ly6C-cells [Single Cell RNA sequence]
Single cell RNA sequencing of murine circulating blood monocytes under steady state conditions. 2 pl...
GSE39652: AGO4 Regulates Entry into Meiosis and Influences Silencing of Sex Chromosomes in the Male Mouse Germline
The four mammalian Argonaute family members are thought to share redundant functions in the microRNA...
GSE40111: Stochastic genome - nuclear lamina contacts are linked to histone H3K9 dimethylation (RNA-seq data)
The nuclear lamina (NL) interacts with hundreds of large genomic regions termed lamina-associated do...
GSE50244: Global transcriptomic analysis of human pancreatic islets reveals novel genes influencing glucose metabolism [RNA-seq]
Here we harnessed the potential of RNA sequencing in 89 human pancreatic islet donors to identify ge...
GSE40475: Selective lymphoma cell killing by a PRC2 small molecule inhibitor (RNA-Seq)
Genome-wide gene expression changes in response to iEZH treatment in HT and SUDHL6 cells using RNA s...
GSE44640: Differential Molecular Effects of Imiglucerase and Velaglucerase Alfa in Gaucher Disease Mice [RNA-Seq]
Gaucher disease type 1 is an inborn error of metabolic disease with the defective activity of the ly...
GSE95434: Single cell RNA-seq of 346 epithelial cells from the mammary glands of pre-pubescent, pubescent and adult mice
Mammary glands were collected from pre-pubescent (2 weeks old), pubescent (4.7- 4.9 weeks old) and a...
GSE45504: Muscleblind-like proteins regulate embryonic stem cell-specific alternative splicing and reprogramming II
Previous investigations of the core gene regulatory circuitry that controls embryonic stem cell (ESC...
GSE44698: Global analyses of how 3' UTR-isoform choice influences mRNA stability and translational efficiency
We obtained global measurements of decay and translation rates for mammalian mRNAs with alternative ...
GSE50554: RNA-Seq analysis of KLF3 knockout E14.5 TER119+ (erythroid) murine fetal liver cells
The aim of this study was to analyze the transcriptome of TER119+ fetal liver cells in the absence o...
GSE43916: Hierarchical mechanisms for transcription factor-mediated reprogramming of fibroblasts to neurons
Here we reveal a hierarchical mechanism in the direct conversion of fibroblasts into induced neurona...
GSE84337: Campylobacter concisus pathotypes induce distinct global responses in intestinal epithelial cells [UNSWCD]
We report the response of Caco-2 cells to infection by C. concisus strains or exposure to C. concisu...