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Sequencing-based assays page 5
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GSE63018: Genome and transcriptome profiling of fibrolamellar carcinoma [RNA-Seq]
Fibrolamellar hepatocellular carcinoma (FL-HCC) is a rare variant of HCC that most frequently affect...
GSE76860: Targetting super enhancer associated oncogenes in esophageal squamous cell carcinoma [RNA-seq]
Esophageal squamous cell carcinoma (ESCC) is an aggressive malignancy and the major histological sub...
GSE65348: Differential expression between Sh2b3 knockout and wild type mice
To validate the predicted Sh2b3 derived gene regulatory subnetwork using integrative network approac...
GSE97713: Genome-wide binding reveals intrinsic specificity and regulatory function of lineage-specifying bHLH transcription factors (RNA-Seq).
Developmental mechanisms of lineage specification are crucial to tissue-specific gene regulation, an...
GSE64856: Tet-mediated imprinting erasure following reprogramming of spermatogonial stem cells to induced pluripotent stem cells
We sequenced mRNA from three preparations each of murine Gfra1+ spermatogonial stem cells (SSC), SSC...
GSE66306: Impact of bariatric surgery on RNA-seq gene expression profiles of peripheral monocytes in humans
Genome-wide expression profiles in peripheral monocytes (PM) from 19 obese women before and 3 months...
GSE64752: Long-term expandable SOX9+ chondrogenic ectomesenchymal cells from human pluripotent stem cells
Purpose: We have succeeded in the generation and long-term expansion of SOX9-expressing CD271+PDGFRa...
GSE70814: Regulation of gene expression after FGF2-induced gyrification of mouse brain
We analyze the cortical transcriptome under physiological or FGF2-perturbed conditions. Using system...
GSE64218: Histone methyltransferase PRDM16 in tumor suppression
PRDM16 is highly enriched in adult stem cells and plays a crucial role in multiple developmental pro...
GSE74866: Characterization of parental and erlotinib-resistant derived H1975 cell lines
Through development of an in vivo orthotopic lung cancer model, we reveal an unanticipated pathway d...
GSE67610: Retinoids induce rapid dynamic changes in the non-coding RNAs and epigenetic profiles of murine Hox clusters.
Physiologically relevant concentrations of retinoic acid are added to Mouse ES cells and a time cour...
GSE64969: T cell UTX promotes Tfh-mediated clearance of persistent virus infection
Epigenetic changes, including histone methylation, control T cell differentiation and memory formati...
GSE98016: Transcriptome analysis on TDP43 and SRSF3 downstream genes and binding RNAs in MDA-MB231 cells by Next Generation Sequencing
TDP43 and SRSF3 has been reported to be RNA-binding proteins; however their roles in breast cancer p...
GSE65335: Genome-wide expression erofiling of an in vitro model for studying esophageal epithelial differentiation
We used RNA sequencing to identify differentially expressed genes during esophageal epithelial diffe...
GSE62641: Comparison of TLR4-stimulated mouse microglia from wildtype and CD14ko strains
The analysis reveals the importance of CD14 in microglial responses to pathogen- and damage-associat...
GSE64550: shRNA knockdown of YAP1 in HCC364 cells, various drug conditions
Through a genetic screen in BRAF mutant tumor cells, we show that the Hippo pathway effector YAP act...
GSE65408: Transcriptome analysis of TNFR2-knockout mouse colon
PURPOSE: The goal of this study was to determine the gene expression networks regulated by tumor nec...
GSE117232: Single cell RNA sequencing of primary-isolated erythroid progenitors [daughter cells]
Single cell mouse BFU-E (burst forming unit-erythroid ) were FACS-deposited into individual wells o...
GSE78781: Trophoblast stem cells (TSC) global transcriptome in stemness conditions after treatment with Lsd1 inhibitor or induction of Lsd1 depletion [RNA-seq]
RNA-Seq for Lsd1-deficient TSCs or treated with Lsd1 inhibitor for 24hrs SOURCE: Maria,Josefina,Cas...
GSE70389 (mouse): Gene expression profiling of human and murine in vitro muscle differentiation
Total RNA sequencing of human and murine myoblasts and myotubes was extracted, depleted of ribosomal...
GSE132908: Senescence rather than apoptosis of alveolar progenitor cells drives pulmonary fibrosis (mouse bulk AT2)
bulk RNAseq of AT2 cells transcriptome changes comparing Sin3aLOF with control two weeks after tamox...
GSE66557: Transcriptome analyses of skeletal muscle in B-crystallin/HspB2 knockout and wild-type mice on a normal or high fat diet
We profiled the skeletal muscle transcriptome between wild type and B-crystallin/HspB2 knock mice ex...
GSE65030: Effect in HCT116 cells of 3hr cortistatin A treatment on gene expression.
We characterized the marine natural product cortistatin A (CA) as an inhibitor of CDK8 to determine ...
GSE65530: Bulk RNA-seq analysis of the macrophage response to Salmonella enterica subsp. Typhimurium (SL1344) exposure
A time course of the macrophage response to Salmonella exposure analyzing the effects of input cell ...
GSE72494: Effector regulatory T cell differentiation and immune homeostasis depend on the transcription factor Myb
FoxP3-expressing regulatory T (Treg) cells are essential to maintain immune homeostasis. Activated T...
GSE65504: Cellular response to unfolded proteins in cytosol and nucleus
Analysis of the coordinated transcriptional response to unfolded proteins in cytosol and nucleus uti...
GSE65865: Low-grade glioma microglia
To examine the effect of Nf1 inactivation in astrocytes on normal microglia in the optic nerve, micr...
GSE130997: Induction of alpha cell-restricted Gc in dedifferentiating beta cells contributes to stress-induced beta-cell dysfunction [RNA-seq]
To identify effector genes of pancreatic beta cell dedifferentiation and dysfunction, we performed R...
GSE62647: The histone methyltransferase Setd8 represses Gata2 expression and regulates erythroid maturation
The chromatin modifying enzymes that drive the erythroid-specific transcription program are incomple...
GSE130530: Transcriptomal comparison between group 2 innate lymphoid cells (ILC2s) in the murine small intestine (SI-ILC2s) and those in white adipose tissue (WAT-ILC2s)
Transcriptomal comparison between group 2 innate lymphoid cells (ILC2s) in the murine small intestin...
GSE65867: Human junior pilocytic astrocytoma
Microglia in the microenvironment of low-grade tumors have been shown to allow and support tumor gro...
GSE71310: RNA-Seq Analysis of Gfi1b KO Megakaryocytes
Megakaryocytes isolated from Gfi1b flox/flox mice carrying PF4-Cre or not, and from Gfi1b flox/flox ...
GSE65636: Cellular response to heat shock and ER stress
Analysis of the coordinated transcriptional reponse to heat shock and ER stress SOURCE: Thomas Wandl...
GSE128052: Transcriptional profile of pDyn-lineage spinal interneurons in the developing mouse
Purpose: Mounting evidence suggests that the spinal dorsal horn (SDH) contains multiple subpopulatio...
GSE63256: Reg4+ Deep Crypt Secretory cells function as epithelial niche for Lgr5+ stem cells in colon
Lgr5+ stem cells reside at crypt bottoms of the small and large intestine. Small intestinal Paneth c...
GSE66053: Single mammalian cells compensate for differences in cellular volume and DNA copy number through independent global transcriptional mechanisms
We performed single-cell and bulk transcriptome profiling in two different human cell lines. We perf...
GSE62684: Nuclear Lamins are Not Required for Genome Organization in Mouse Embryonic Stem Cells [RNA-Seq]
In mammals, the nuclear lamina interacts with hundreds of large genomic regions, termed lamina-assoc...
GSE67658: Effects of Trbp deletion on gene expession in mice hearts
We generated the cardiac-specific knockout of Trbp (Trbp-cKO) in mice. We profiled the transcriptome...
GSE61991: Neural circular RNAs are derived from synaptic genes and regulated by development and plasticity
Circular RNAs (circRNAs), formed by the atypical head-to-tail splicing of exons, have re-emerged as ...
GSE87366: Decreased Fgf8 gene dosage on gene expression
Robustness to perturbation, or canalization, is a fundamental and required feature of complex organi...
GSE65949: Transcriptome analysis of human OXR1 depleted cells reveals its role in regulating the p53 signaling pathway
Purpose: The oxidation resistance gene 1 (OXR1) is crucial for protecting against oxidative stress, ...
GSE110193: RNA-seq analysis of BAP1-depleted uveal melanoma cells
OCM-1A uveal melanoma cells were infected with lentivirus carrying shRNA expression constructs speci...
GSE79636: NextGen Consortium: GENESiPS Study: Identifying the Gene Networks of Insulin Resistance
RNA-seq transcriptome profiling of human induced pluripotent stem cells to characterize gene express...
GSE65921: Neonatal nave CD8+ T cells have effector-like gene expression that prevents memory cell formation [3'UTR-seq]
Neonates are intrinsically defective at creating memory CD8+ T cells in response to infection with i...
GSE124827: RNA-seq of B2, B1 and B2toB1 cells
RNA-seq of splenic follicular B2 cells, peritoneal 5C5 B1 cells and peritoneal B2toB1 cells 30 days ...
GSE65772: Transcriptome profiling in knock-in mouse models of Huntington's disease [Liver_mRNA]
Huntington's disease (HD) is an autosomal dominant neurodegenerative disorder that is characterized ...
GSE62001: Regulation of alternative cleavage and polyadenylation by 3 end processing and splicing factors
Alternative cleavage and polyadenylation (APA) results in mRNA isoforms containing different 3 untra...
GSE70471: Hearts from AE3-null mice - RNA-Seq
The AE3 (Slc4a3) Cl/HCO3 exchanger is highly abundant in heart, but its function is not known. To as...
GSE66619: RNA-Seq of DRG and dorsal cord after nerve injury
Genes are up and down regualted in DRG and spinal dorsal cord after peripheral nerve injury SOURCE: ...
GSE68617: Trim33 binds and silences a class of young endogenous retroviruses in the mouse testis
Transposable elements (TEs) have been active in the mammalian genome for hundreds of millions of yea...
GSE69726: Myocardin-related transcription factors are required for cardiac development and function
Myocardin-Related Transcription Factors A and B (MRTF-A and MRTF-B) are highly homologous proteins t...
GSE66632: The regulartory role of ZCCHC24 in splicing machinery
ZCCHC24, Zinc Finger, CCHC domain containing 24. Showed mesenchymal cell specific expression, but no...
GSE129295: Next Generation Sequencing Facilitates Quantitative Analysis of bladder cancer cells (T24) with constitutively active RhoC mutant (Q63E) overexpression and vector control (VEC) Transcriptomes
Purpose: Next-generation sequencing (NGS) has revolutionized systems-based analysis of cellular path...
GSE66953: Transcription of mammalian cis-regulatory elements is restrained by actively enforced early termination [RNA]
Upon recruitment to active enhancers and promoters, RNA polymerase II (Pol_II) generates short non-c...
GSE66457: Mutational blows to Sox2+ cells induce epithelial squamous tumor initiation
Cancer originates as the progressive accumulation of genetic mutations in proto-oncogenes and tumor ...
GSE72268: Reprogramming postnatal human epidermal keratinocytes toward functional neural crest fates
During development, neural crest cells are induced by signaling events at the neural plate border of...
GSE65976: RNA-seq analysis of epididymal adipose tissue from wild-type and Maf1 knockout mice
Purpose: To profile the effect of the Maf1 knockout on RNA polymerase II and RNA polymerase III tran...
GSE63285: Kdm5b depletion in embryonic stem cells does not induce intragenic promoters or affect transcription [RNA-Seq]
The application of massively-parallel sequencing (MPS) technology to understanding how the genome is...
GSE66719: SF3B1 Degron knockdown RNA-seq
Knockdown of mutant and/or wild-type SF3B1 in MEL202 cell line by Degron knock-in, followed by RNA-s...
GSE69709: RNAseq in E18.5 wild-type, Nova2-KO, and Nova1-KO mouse cortex and mid- and hind-brain
We sequenced mRNA from E18.5 mouse cortex (3 wild-type vs 3 Nova2-/- and 3 wild-type vs 3 Nova1-/-) ...
GSE68220: Genome-wide maps of CD14-dependent and CD14-independent bladder innate immune responses to UPEC
We report a transcriptional response in the mouse bladder that encompasses multiple innate immune ne...
GSE64411: Identification of therapeutic targets for glioblastoma by network analysis
In this study, we confirmed that transformed dedifferentiated astrocytes and neurons acquired a stem...
GSE67540: RNA polymerase in pre-B-ALL cell lines
[Gro-seq] Precursor B acute leukemia cells measured using global nuclear run-on sequencing; [ChIP-Se...
GSE131120: ANILLIN REGULATES BREAST CANCER CELL MIGRATION, GROWTH AND METASTASIS BY NON-CANONICAL MECHANISMS INVOLVING CONTROL OF CELL STEMNESS AND DIFFERENTIATION
Breast cancer metastasis is driven by profound remodeling of the intracellular cytoskeleton enabling...
GSE114741: Ribosome profilling and RNA Sequencing of WT and Rasgrp1Anaef mouse CD4+ T cells
To determine what mRNAs are translated at baseline in CD4+ T cells, and whether these are altered in...
GSE67120: Tracing the Formation of Haematopoietic Stem Cells in Mouse Embryos by Single-cell Functional and RNA-Seq Analyses [single-cell]
Haematopoietic stem cells (HSCs) are derived early from embryonic precursor cells, such as haemogeni...
GSE69007: Dnmt3l-knockout donor cells improve somatic cell nuclear transfer reprogramming efficiency
We found that Dnmt3l-KO donor cells display decreased levels of H3K9me3 and H3K27me3 accumulation, h...
GSE110194: Comparison between nitroglycerine and vehicle treatments in mouse trigeminal ganglia and nucleus accumbens
Chronic nitroglycerin treatment elicits hyperalgesia in mice that is significantly augmented by a hu...
GSE67556: Parent-of-Origin Allelic Expression in the Mouse Cerebellum
The maternal and paternal genomes play different roles in mammalian brains as a result of genomic im...
GSE67324: High-fat diet enhances stemness and tumorigenicity of intestinal progenitors
Little is known about how pro-obesity diets regulate tissue stem and progenitor cell function. Here ...
GSE109425: Next Generation Sequencing Quantitative Analysis of Srf-regulated Transcriptomes in mouse cardiomyocytes during cardiomyocyte maturation [exp1]
The goal of this study is to analyze the role of Srf in transcriptional analysis during cardiomyocyt...
GSE79656: Mapping interactions for the TNIP2 hub protein
This experiment analyzes the set of RNAs copurifying with the protein TNIP2 (amino acids 196-346) SO...
GSE71257: Transcriptome assay of materal mRNA degradation in Btg4-deleted oocytes
We analyzed the functions of BTG family proteins in maternal mRNA degradation in mouse oocytes. By c...
GSE64459: Genetic Variation Determines PPAR Function and Antidiabetic Drug Response In Vivo [RNA-seq]
SNPs affecting disease risk often reside in non-coding genomic regions. Here we show that SNPs are h...
GSE112330: A novel reprogramming strategy to generate functionally competent human hepatocytes
Cell fate can be directly converted between differentiated cells by lineage reprogramming, thus gene...
GSE67672: RNA-seq analysis between mouse UPS tumors (KP) and mouse UPS tumors without HIF-2alpha (KPH2)
Purpose: determine RNA expression differences in an unbiased fashion between UPS tumors derived from...
GSE67039: Leucegene: AML sequencing (part 5)
RNA sequencing of human leukemia SOURCE: Guy Sauvageau Institute for Research in Immunology and Canc...
GSE67812: RNA sequencing of heart samples of myotonic dystrophic (DM1) patients
Analysis of alternative splicing in heart (left ventricles) samples of 3 adult DM1 patients versus ...
GSE79668: RNA-sequencing of human pancreatic adenocarcinoma cancer tissues
RNA-seq profiling was conducted on clinically-annotated human pancreatic adenocarcinoma cancer tissu...
GSE122612: Predicting drug-free remission in rheumatoid arthritis: the Biomarkers of Remission in Rheumatoid Arthritis (BioRRA) Study
Sustained remission is now an achievable goal in rheumatoid arthritis (RA) using modern treat-to-tar...
GSE67245: The role of Tet3 in regulating gene expression in response to global synaptic activity changes
Counter to the long-held belief that DNA methylation of terminally differentiated cells is permanent...
GSE67583: Promoter-proximal R-loops regulate binding of chromatin regulators and pluripotency [RNA-seq]
Numerous chromatin-remodelling factors are regulated by interactions with RNA. However, the contexts...
GSE69244: Whole transcriptome analysis of brain hippocampal tissue from young and old senescence-accelerated prone SAMP8 mice treated with control diet and J147-containing diet
AD drug discovery has rarely been addressed in the context of aging even though sporadic AD accounts...
GSE103224: Single-Cell Transcriptome Analysis of Lineage Diversity and Microenvironment in High-Grade Glioma
Despite extensive molecular characterization, we lack a comprehensive picture of lineage identity, d...
GSE67834: Transcriptome analysis of thymic APC subsets, mTECs and thymic DCs in comparison to splenic DCs
Thymic antigen-presenting cells (APCs), including thymic dendritic cells (t-DCs) and medullary thymi...
GSE68470: Circadian and light-driven regulation of rod dark adaptation
The sensation of light is initiated in photoreceptor cells by the photoisomerization of a chromophor...
GSE97100: mRNAseq of Huntington's disease and control patient iPSC-derived brain microvascular endothelial cells
Purpose: The goals of this study are to compare the transcriptomic profile (mRNA-seq) of HD and cont...
GSE70224: rDNA chromatin interactions in the MYC-driven E-Myc transgenic mouse model of B-cell lymphoma [RNA-seq]
Analysis of gene expression by RNA-seq in mouse wildtype, premalignant and malignant E-Myc cells. SO...
GSE69602: Ribosome profiling analysis of Dengue Virus
Dengue virus is an + strand RNA virus. We have carried our infections of human cells with Dengue and...
GSE68628: ABCC5 functions as a transporter of glutamate conjugates and analogs
The ubiquitous efflux transporter ATP-binding cassette sub-family C member 5 (ABCC5) is present at h...
GSE71025: Minocycline counter regulates the global pro-inflammatory response in microglia and protects from retinal degeneration
Minocycline is a potent modulator of retinal microglia SOURCE: Thomas Langmann (thomas.langmann@uk-k...
GSE92247: Neonatal Transplantation Confers Maturation of PSC-Derived Cardiomyocytes Conducive to Modeling Cardiomyopathy
Pluripotent stem cell-derived cardiomyocytes (PSC-CMs) were transplanted into rats for one month to ...
GSE64687: Differences in murine miR-150-/- CD8+ T cells
MicroRNAs are a major class of gene regulators in mammals. While numerous aspects of the immune sys...
GSE69054: An Nfic-Hedgehog Signaling Cascade Regulates Tooth Root Development
This study aimed to perform transcriptome profiling of Nfic-/- and corresponding control tooth germ ...
GSE69314: Global analysis of mouse polyomavirus infection reveals dynamic regulation of viral and host gene expression
We have used deep sequencing to follow polyomavirus infection of mouse NIH3T6 cells. We carried out...
GSE69618: An orthologous epigenetic gene expression signature derived from differentiating embryonic stem cells identifies regulators of cardiogenesis
We report a time course of RNA-seq data from wild-type embryonic stem cells and embryonic stem cells...
GSE63482: Transcriptional Profiling of Sorted Mouse Cortical Projection Neuron Subtypes
Neuronal development requires a complex choreography of transcriptional decisions to obtain specific...
GSE67866: RNA sequencing of cells treated with DMSO or Retinoic acid during cardiac differentiation
Analysis of transcriptional differences between control and RA-treated cells during cardiac differen...
GSE65388: Ion Transporter NKCC1 - Modulator of Neurogenesis in Murine Olfactory Neurons
Olfaction is one of the most crucial senses for vertebrates regarding foraging and social behavior. ...
GSE139543: Chromatin binding protein PHF6 regulates activity-dependent transcription networks to promote hunger response [RNA-Seq]
We revealed that PHF6 bound to the promoters of a subset of neuronal immediate-early genes (IEGs) an...