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Sequencing-based assays page 33
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GSE99675: CDK4/6 inhibitor resistance in prostate cancer
CDK4/6 kinase inhibitors have shown great promise in clinical trials in various cancer types and hav...
GSE65924: Stereo-sequencing: 3D Transcriptome of the mouse embryo at gastrulation
To glean an appreciation of the holistic genetic activity in the gastrulating mouse embryo, we perfo...
GSE71281: An IL-23R/IL-22 circuit regulates epithelial serum amyloid A to promote local effector Th17 responses II [RNA-Seq]
Purpose: The goals of this study are to compare in vitro polarized T helper 17 cell transcriptome pr...
GSE138614: Next-generation sequencing study in multiple sclerosis white matter brain lesions
Total RNA seq on human brain tissue samples. SOURCE: Tobias Frisch (frisch@imada.sdu.dk) - Universi...
GSE65665: Gene expression profiling of effect of Yap inhibition in a genetically engineered mouse model of hepatocellular carcinoma
Defective Hippo/YAP signaling in the liver results in tissue overgrowth and development of hepatocel...
GSE66551: Nuclear orphan receptor TLX affects gene expression in pancreatic beta cells
Using Illuminas digital gene expression (DGE) system, we investigated the transcriptional response t...
GSE124794: Whole-transcriptome profiling of LCMV.GP66-77 specific CD4 T cells isolated from bone marrow (BM) and spleen, 60 days after last immunization [RNA-seq]
To udnderstand the tissue-resident features of antigen-specific memory T cells of the bone marrow an...
GSE65770: Transcriptome profiling in knock-in mouse models of Huntington's disease [Cortex_mRNA]
Huntington's disease (HD) is an autosomal dominant neurodegenerative disorder that is characterized ...
GSE115059: Transcriptomic analysis of the role of the integrin a6b4 in detached cells
Analysis of gene expression profiles of matrix-detached cells with and without expression of ITGB4, ...
GSE74957: Graded Foxo1 Activity in Tregs Differentiates Tumor Immunity from Spontaenous Autoimmunity
Regulatory T cells (Tregs) expressing the transcription factor Foxp3 have a pivotal role in maintain...
GSE61716: Transcriptional perturbations by long noncoding RNAs with distinct spatio-temporal expression in the mammalian brain
Long noncoding RNAs (lncRNAs) have been implicated in numerous cellular processes including brain de...
GSE65943: A study of alterations in DNA epigenetic modifications (5mC and 5hmC) and gene expression influenced by simulated microgravity in human lymphoblastoid cells [RNA-seq]
Here, in this study we systematically examined the patterns of DNA methylation and hydroxy-methylati...
GSE65884: PDGFR+ cells in ESC cultures represent the in vitro equivalent of the pre-implantation primitive endoderm precursors
Mouse Embryonic Stem Cells (ESCs) express PDGFR heterogeneously, fluctuating between a PDGFR+ (PrE-p...
GSE66962: Effect of OVO-like 1 knockdown on global transcript expression in differentiated BeWo trophoblast cells
We had previously discovered that the transcription factor OVO-like 1 (OVOL1) was highly induced dur...
GSE66014: Global Gene Expression analysis of CUTLL1 cell lines after treatment with Perhexiline
We identify perhexiline, a small molecule inhibitor of mitochondrial carnitine palmitoyltransferase-...
GSE65651: Gene expression profiling of wildtype vs. transgenic mice expressing the cardiac specific genetically encoded FRET biosensor Epac1-PLN
3,5-cyclic adenosine monophosphate (cAMP) is an ubiquitous second messenger which regulates multiple...
GSE65796: Multiple Arkadia/RNF111 structures coordinate its Polycomb body association and transcriptional control
The RING domain protein Arkadia/RNF111 is a ubiquitin ligase in the transforming growth factor beta ...
GSE65868: GBM microglia
High grade glioma in mice and human have been shown to be greatly impacted by the infiltration of ma...
GSE65621 (mouse): Asymmetry of STAT action in driving IL-27 and IL-6 transcriptional outputs and cytokine specificity
IL-6 and IL-27 have antagonistic and overlapping functions, signal through a shared receptor subunit...
GSE119780: RNA-Seq Analysis of TCDD-Elicited Changes in Circadian Hepatic Gene Expression in Male Mice
Hepatic gene expression was examined every 3 hours for 24 hours following repeated exposure (every 4...
GSE131880: Proteogenomics uncovers a vast repertoire of shared tumor-specific antigens in ovarian cancer
High-grade serous ovarian cancer (HGSC), the principal cause of death from gynecological malignancie...
GSE68219: MYC is a major determinant of mitotic cell fate
Purpose: To determine global gene expression changes following siRNA knockdown of Myc, Kcnk1, and Sn...
GSE71165: Splenic bridging channel dendritic cells survey red blood cells for missing self-CD47
In vivo exposure of mouse CD4+ splenic DCs to sheep red blood cells causes prompt induction of multi...
GSE65315: Brg1 promotes both tumor suppressive and oncogenic activities at distinct stages of Pancreatic cancer formation
Pancreatic Ductal Adenocarcinoma (PDA) develops predominantly through pancreatic intraepithelial neo...
GSE65774: Transcriptome profiling in knock-in mouse models of Huntington's disease [Striatum_mRNA]
Huntington's disease (HD) is an autosomal dominant neurodegenerative disorder that is characterized ...
GSE65887: hnRNPK is involved in mRNA processing of a significant fraction of the transcriptome
Here, we report the first genomic-scale comprehensive characterization of mouse transcripts bound to...
GSE65950: Effects of selection for ethanol preference on gene expression (RNA-Seq) in the nucleus accumbens shell of HS-CC mice
Nucleus accumbens shell gene expression was assessed by RNA-Seq to determine effects of bidirectiona...
GSE65775: Transcriptome profiling in knock-in mouse models of Huntington's disease [AllelicSeries_6month_TissueSurvey_mRNA]
Huntington's disease (HD) is an autosomal dominant neurodegenerative disorder that is characterized ...
GSE66049: Maternal DNA methylation regulates early trophoblast development
Critical roles for DNA methylation in embryonic development are well established, but less is known ...
GSE63340: Tissue-resident macrophage enhancer landscapes are shaped by the local microenvironment [RNA-seq]
Macrophages are hematopoietic cells critical for innate immune defense, but also control organ homeo...
GSE66301: Gene expression profiling of patient's DCIS-IDC tandem lesions by RNA sequencing analysis
Tandem DCIS/IDC are defined as ductal carcicnoma in situ (DCIS) lesions that have concurrent invasiv...
GSE65955: Tet1 is a tumor suppressor of hematopoietic maligancy [RNA-Seq]
Loss of Tet1 expression causes global 5mC and 5hmC changes in stem and progenitor cells in mice and ...
GSE67404: Foxc1 reinforces quiescence in hair follicle stem cells
Quiescent stem cells are periodically activated to maintain tissue homeostasis or occasionally calle...
GSE81236: MicroRNA-28 replacement for non-Hodgkin lymphoma therapy
Our studies identify the role of mIR-28 in germinal center response and its therapeutic potential fo...
GSE63889: H3K18Ac and H3K18Cr ChIP-seq and RNA-seq analysis of LPS-stimulated RAW 264.7 cells
(1) We sought to characterize the genomic profiles of H3K18Ac and H3K18Cr before and after the activ...
GSE114374: Composition of the Colonic Mesenchyme and the Nature of its Plasticity in Inflammatory Bowel Disease
10x Chromium single cell RNA-Seq of colonic mesenchyme cell populations in health and Ulcerative Col...
GSE66630: Transcriptome dynamics during the development of heart failure caused by mitochondrial complex I dysfunction and pressure overload
Comprehensive knowledge of the dynamic changes in the cardiac transciptome can inform disease mechan...
GSE70466: Replicated transcriptome profiling of Normal and Cancerous Prostate Cells [RNA-Seq]
To identify differentially expressed transcripts in Cancer and Normal Prostate cells global transcr...
GSE156790: Genome-wide transcriptomic analysis of MRTF-active subpopulations in nave human basal cell carcinoma
Tumor heterogeneity and lack of knowledge about resistant cell states remain a significant barrier t...
GSE65922: Neonatal nave CD8+ T cells have effector-like gene expression that prevents memory cell formation [RNA-seq]
Neonates are intrinsically defective at creating memory CD8+ T cells in response to infection with i...
GSE62292: mRNA profiling of Col4a3-Knockout Alport Syndrome mouse model treated with inhibitor of miR-21 at 9 weeks of age
Purpose: MicroRNA-21 contributes to the pathogenesis of fibrogenic diseases in multiple organs inclu...
GSE67688: Transcriptomic analysis of vulvovaginal candidiasis identifies a role for the NLRP3 inflammasome
RNA-seq analysis of an in vivo murine model of vulvovaginal candidiasis SOURCE: Amol,Carl,Shetty (as...
GSE69285: Histone H3K36M mutation impairs mesenchymal differentiation and drives sarcoma development [RNA_H33_K36M_HMT]
The goal of this study is to understand the alterations in transcriptome induced by histone H3K36M m...
GSE138002: scRNA-seq of the developing human retina
Time-series of single-cell RNA-sequencing performed on stem cell derived retinal organoids or post-m...
GSE68938: RNA:DNA hybrids in the human genome have distinctive nucleotide characteristics, chromatin composition, and transcriptional relationships (RNA-seq)
Mapping of RNA:DNA hybrids in human cells reveals a number of characteristics of these non-canonical...
GSE70132: BMP signaling differentially regulates distinct hematopoietic stem cell types
In BRE-GFP transgenic mice BMP activated cells are marked by GFP expression. Analysis of GFP+ and GF...
GSE70484: Noncanonical Genomic Imprinting Effects In Offspring
We report genomic imprinting effects in the arcuate nucleus, dorsal raphe nucleus, liver and muscle ...
GSE139822: RNA-seq data of small cell carcinoma of the bladder (SCCB) /urothelial carcinoma (Non-SCCB) clinical samples, and bladder-PARCB cell lines
SCCB or Non-SCCB samples are collected from Archived FFPE SOURCE: Liang Wang (liangwang@mednet.ucla....
GSE62710: Commensal microbiota constantly control maturation and function of microglia in the central nervous system
As tissue macrophages of the central nervous system (CNS), microglia are critically involved in dise...
GSE136923: RNA-seq data from Cdk8/ and wildtype BCR-ABL1p185+ transformed bone marrow cell lines either untreated or treated with SenexinB (4 biological replicates each)
RNA-seq data from Cdk8/ and wildtype BCR-ABL1p185+ transformed cell lines either untreated or treat...
GSE66634: Alteration in the transcriptome of the lung during TGF-induced pulmonary fibrosis
Pulmonary fibrosis (PF) is associated with many chronic lung diseases including Systemic sclerosis (...
GSE98856: N6-methyladenosine (m6A) recruits and repels proteins to regulate mRNA homeostasis
RNA modifications are integral to regulation of RNA metabolism. One such abundant mRNA modification ...
GSE67355: A Stringent Systems Approach Uncovers Gene-Specific Mechanisms Regulating Inflammation [RNA-Seq]
Much has been learned about transcriptional cascades and networks from large-scale systems analyses ...
GSE67009: ESRP2 Regulates A Conserved And Cell-Type-Specific Splicing Program to Support Postnatal Liver Maturation
Alternative splicing greatly expands the proteomic diversity but its functional impact is often uncl...
GSE70437: The acute cold response of brown adipose tissue analyzed by RNA-seq
We applied RNA sequencing (RNA-seq) to map the global changes in gene expression of interscapular br...
GSE111950: Effect of mutant TRP53 proteins on nutlin-3a treated mouse lymphoma cell lines (RNA-seq)
Mutations in TRP53, prevalent in human cancers, reportedly drive tumorigenesis through dominant-nega...
GSE93309: Prmt1-mediated translation regulation is a crucial vulnerability of cancer
Through an shRNA screen we have identified Prmt1 as a genetic vulnerability of p53/Rb-null murine os...
GSE130657: Expression profiling by high throughput sequencing of THP-1 cells treated with Monensin
Purpose: to reveal gene expression changes induced by Monensin in THP-1 cells SOURCE: Maria,V,Yusenk...
GSE68715: Global transcriptional analysis of mouse fibroblasts, chemically-induced neurons (neuron-like cells) from mouse fibroblasts and mouse primary cortical neurons by RNA-seq
Recently, direct reprogramming between divergent lineages has been achieved by introducing cell-fate...
GSE70355: Chromatin dynamics and the role of G9a in gene regulation and enhancer silencing during early mouse development
Early mouse development is accompanied by dynamic changes in chromatin modifications, including G9a-...
GSE148476: Transcriptome analysis of purified T cells from chronic lymphocytic leukemia patients treated with avadomide alone or in combination with immune checkpoint blocking antibodies
Cancer treatment has been transformed by checkpoint blockade therapies, with the highest anti-tumor ...
GSE73082: Determination of the Sp5 regulated transcriptome in differentiating ES cells
Sp5 is a target and critical transducer of the Wnt/beta-catenin signaling pathway and is essential f...
GSE111911: RNA-seq analysis of splenic follicular IgD low and IgD high, and marginal zone B cells
RNA sequencing was performed to determine the uniqueness of splenic follicular IgD low B cells compa...
GSE141746: RNA-sequencing
RNA sequencing for 10 samples SOURCE: ren shengnan (renshengnan@jlu.edu.cn) - China-Japan union hos...
GSE102348: High-Resolution Dissection of Conducive Somatic Cell Reprogramming to Nave Ground State Pluripotency in Mbd3/NuRD and Gatad2a/NuRD Depleted Systems [RNA-Seq]
Reprogramming of somatic cells to induced pluripotent stem cells provoke immense interest both for c...
GSE65531: Analysis of bacterial and macrophage transcripts in ISRE-positive and negative infected macrophages
To identify bacterial transcripts that may be associated with type I IFN production in Salmonella en...
GSE136632: Transcriptome of diurnal human blood neutrophils
Our study aims to analyze time-dependent changes in neutrophil phenotype SOURCE: Jose,M,Adrover (nis...
GSE66686: De novo Reconstruction of Adipose Tissue Transcriptomes Reveals Novel Long Non-coding RNAs that Regulate Brown Adipocyte Development
Brown adipose tissue (BAT) protects against obesity by promoting energy expenditure via uncoupled re...
GSE105451: TARGET-seq: novel method for single-cell mutational analysis and parallel RNA-sequencing [validation in cell lines; Figure 2 and Figure S3]
We developed TARGET-seq, a single-cell genotyping and RNA-seq method, which allows accurate detectio...
GSE103870: RNA-Seq of in vitro Beta-Catenin-Stabilized Mouse Dermal Fibroblasts
Gene expression changes in mouse ventral dermal fibroblasts in response to Beta-Catenin stabilizatio...
GSE67113: MicroRNA-146a modulates B-cell oncogenesis by regulating EGR1
miR-146a is a NF-B induced microRNA that serves as a feedback regulator of this critical pathway. I...
GSE69733: Knockdown of SR protein family in P19 cells and RNA-seq of cytoplasmic and whole cell polyA+ RNA
Our data suggest that all SR proteins contribute to mRNA export via NXF1. To identify endogenous exp...
GSE101754: Exploring the gene expression profile upon FXR1 knockdown in H358 cells using RNA-seq
We performed the RNA-seq in control samples and FXR1 knockdown samples, and compared the gene expres...
GSE115141: Ongoing classical IL-6 signaling is required to maintain a pathogenic Th17 response in vivo
Th17 precursors from WT and IL6ra-/- mice were co-transferred into Rag1-/- mice to induce colitis. R...
GSE67525: Molecular anatomy of palate development
Background: The FACEBASE consortium was established in part to create a central resource for craniof...
GSE130642: Transcriptomic analysis of hepatic genes in high-fat diet treated wild type and Sesn3 knockout mice
RNA-seq was performed on mRNA samples purified from the liver of wild type (WT) and Sesn3 knockout (...
GSE73114: RNA-sequencing analysis of human fibrolamellar hepatocellular carcinoma and 4 maturational stages of the human hepatobiliary system
The etiology of fibrolamellar hepatocellular carcinoma (FL-HCC), a liver cancer occurring increasing...
GSE135594: Transcriptomic profiling of nave and memory phenotype CD8 T cells in Dock2-deficient mice
Transcriptomic data linked to our study showing that DOCK2 sets the threshold for entry into the vir...
GSE74881: RNA-Seq comparisons of gene expression profiles of epithelial and mesenchymal cells - HMLE, N8, N8-CTx
We find that treating mesenchymal NAMEC8 cells with cholera toxin (CTx) to elevate intracellular cAM...
GSE103901: ILC1 confer early host protection at initial sites of viral infection [RNA-Seq]
We show that tissue-resident ILC1 serve a non-redundant early role in host immunity through rapid pr...
GSE67184: Transcription Profiling of Malaria-Nave and Semi-Immune Colombian Volunteers in a Plasmodium vivax Sporozoite Challenge [RNA-Seq]
We report two clusters in the overall profiles of expression among the samples. At the parasitemia o...
GSE67305: Ribosome profiling reveals the rhythmic liver translatome and circadian clock regulation by upstream open reading frames
Mammalian gene expression displays widespread circadian oscillations. Rhythmic transcription underli...
GSE63943: mRNA-Seq of the CA1 hippocampal subregion and liver from 3 month and 20 month old animals treated orally with vehicle or SAHA and mRNA-Seq of CA1 of 10 month old WT or APP/PS1-21 transgenic animals treated orally with vehicle or SAHA
Aging and increased amyloid burden are major risk factors for cognitive diseases such as Alzheimer's...
GSE130735: Genome-wide roles of DNA methyltransferases in mouse embryos
Mouse embryos acquire global DNA methylation of their genome during implantation. However the exact ...
GSE66679: Laser capture microdissection/RNA-Seq analyses of Hoxa9,10,11/Hoxd9,10,11 mutant limb development
We used a novel recombineering method to introduce frameshift mutations into the first exons of the ...
GSE130472: Gene expression analysis of Triple-negative breast tumors from young and aged mice
Whole tissue RNA-seq analysis of mammary tumors from old (>12 months) and young (8-10 weeks) of mice...
GSE84341: Host Transcriptomic responses to pneumonic plague reveal that Yersinia pestis inhibits both the initial adaptive and innate immune responses in mice
Pneumonic plague is the most deadly form of infection caused by Yersinia pestis and can progress ext...
GSE70711: Regulation of bifurcating B cell trajectories by mutual antagonism between IRF4 and IRF8 (RNA-Seq)
Upon antigen recognition B cells undertake a bifurcated response in which some cells rapidly differe...
GSE75765: Biogenesis and function of tRNA fragments during sperm maturation and fertilization in mammals (single embryo)
Parental dietary conditions can influence the metabolic traits of offspring. In mice, paternal consu...
GSE111968: Transcriptomic analysis of human tonsillar TFH subsets
We used an IL4-capture assay followed by FACS sorting, to isolate IL4-secreting TFH cells from a hum...
GSE125453: RNA-sequencing analysis examining how the Vibrio cholerae MARTX toxin and its inidividual effector domains modulate the transcriptome of human intestinal epithelial cells.
MARTX toxins are large single polypeptide bacterial toxins that translocate multiple cytotoxic and f...
GSE70728: Role of the histone demethylase KDM2B in hematopoietic homeostasis and malignancies [RNA-seq]
Development of the hematopoietic system is dynamically controlled by the interplay of transcriptiona...
GSE71208: Messenger RNA profile analysis deciphers new Esrrb responsive genes in prostate cancer cells
We report nuclear receptor Esrrb's responsive genes with or without Esrrb ligand DY131 in DU145 cell...
GSE113839: RNA-seq from HNSCC and melanoma populations
Populations were sorted from tumor speciments via flow cytometry using EPCAM, FAP, CD45, and CD31 su...
GSE132019: LPS-induced gene expression changes in phraryngeal epithelial cells
Gram negative endotoxin Lypopolysaccharide (LPS) leads to a strong innate immune response through TL...
GSE63418: RNA sequencing data from beta-catenin activated, E2-2 wildtype and beta-catenin activated, E2-2 deleted cultured fetal mouse kidneys.
Oncogenic stabilizing mutations in the beta-catenin gene CTNNB1 are common in one class of human Wil...
GSE127970: EBF1-mutant bone marrow stroma confers long-term changes in hematopoietic stem cell potential
Crosstalk between mesenchymal stromal cells (MSCs) and hematopoietic stem and cells (HSCs) is essent...
GSE129943: Transcriptomic of MKD (MUC1 kidney disease) patient compares to normal derived kidney epithelial cells
bulk RNAseq of MUC1 kidney disease patient derived kidney epithelial cells compare to normal kidney ...
GSE86520: The Er Transcriptome
Impaired estrogen receptor (ER) action promotes obesity and metabolic dysfunction in humans and mic...
GSE66781: Impact of Tcf1 and Lef1 deficiency on follicular helper T (Tfh) cells
Comparison of transcriptome between control and Tcf1/Lef1-deficient germinal center Tfh (GC-Tfh) cel...