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Sequencing-based assays page 46
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GSE85302: KAT6A determines CD8+ T cell diversity via regulation of co-receptors
To identify genes specifically expressed in WT or Kat6a knockout CD8+ T cells, the gene expression p...
GSE83340: RNA-seq analysis of neonatal mouse cochlear supporting cells [Treated AK]
This study examined transcripts that are enriched in neonatal mouse cochlear supporting cells at pos...
GSE93807: Therapeutic utility of natural estrogen receptor beta agonists on ovarian cancer
We examined the transcriptional changes modulated by ESR2 agonist liquiritigenin by perfroming globa...
GSE98157: Fatty Acid Oxidation and Glycolysis Regulate Skin ECM Homeostasis by Shifting Fibroblasts between Catabolism and Anabolism (RNA-Seq)
Transcriptome profiling of murine skin fibrosis, and its treatment through CD36highCD90+ fibroblast ...
GSE99349: Gene Network Dysregulation in Dorsolateral Prefrontal Cortex Neurons of Humans with Cocaine Use Disorder
total RNA-sequencing on dlPFC neurons from 19 human cocaine addicts (1-19) and 17 healthy controls (...
GSE94057: BET-Bromodomain Inhibitors Engage The Host Immune System And Regulate Expression Of The Immune Checkpoint Ligand PD-L1 [3mRNA-seq]
BET inhibitors (BETi) target bromodomain-containing proteins and are currently being evaluated as an...
GSE83350: Genome-wide analysis of gene expression in infarcted and non-infarcted left ventricle from NEIL3-deficient mice subjected to myocardial infarction
Myocardial infarction (MI) triggers a reparative response involving fibroblast proliferation and dif...
GSE150687: Gene regulatory networks controlling differentiation, survival, and diversification of hypothalamic Lhx6-expressing GABAergic neurons
Purpose: highthroughput sequencing (bulk RNA-Seq, bulk ATAC-Seq, and scRNA-Seq) to study hypothalami...
GSE87577: Transcriptional study of ARN8 cells treated with novel DHODH inhibitors
We have previously observed protein level changes after treating human cells with two novel inhibito...
GSE92346: Expression charcaterization of an internal protocol developed to differentiate RPE cells
We performed RNA-seq and miRNA-seq in fetal RPE cells differentated during 5 weeks in a transwell s...
GSE83560: Gene expression profiling of papillary thyroid cancer from central and invasive regions
We analyzed the gene expression profile of papillary thyroid cancer from central and invasive region...
GSE84061: Age-related alterations in Wnt-signaling in paneth and stem cells isolated from intestinal crypts.
Purpose: Characterize functional alterations in stem cells and paneth cells obtained from young and ...
GSE118217: RNAseq analysis of Angiotensin II perfused Apolipoprotein E deficient mice reconstituted with Wild Type or Netrin-1 deficient hematopoietic stem cells
We report the transcriptomic analysis of RNA-seq of aortas isolated from WT ApoE-/- and Ntn1-/- ApoE...
GSE77988: BET Bromodomain inhibition promotes neurogenesis while inhibiting gliogenesis in neural progenitor cells
Neural stem cells (NSCs) and progenitor cells (NPCs) are increasingly appreciated to hold great prom...
GSE85324: Genome-wide maps of m6A circRNAs identify widespread and cell-type-specific methylation patterns that are distinct from mRNAs
We performed N6-methyladenosine (m6A) immunoprecipitation of ribosome-depleted RNA to identify m6A-c...
GSE85039: A multi-scale model for hair follicle reveals heterogeneous skin domains drive rapid spatiotemporal hair growth patterning
We report transcriptomes of whole skin from different anatomic regions, dorsum, ventrum, chin and ea...
GSE83964: Sox2 suppresses gastric tumorigenesis in mice [RNA-seq]
Purpose: Sox2 expression marks gastric stem and progenitor cells, raising important questions regard...
GSE87581: RNA-seq in endometrial stromal tumors
We describe the first analysis of gene expression in endometrial stromal tumors by RNA-seq. We demon...
GSE81492: APOL1 variant expression in mouse podocytes cause kidney disease
Next-generation sequencing (NGS) has become an important tool in molecular charactarization of anima...
GSE86895: Elevation of GPRC5A expression in colorectal cancer promotes tumor progression through VNN-1 induced oxidative stress
The clearance of oxidative stress compounds is critical for the protection of the organism from mali...
GSE102767: GATA2 is Dispensable for Generation of Hemogenic Endothelium But Required for Endothelial-to-Hematopoietic Transition
Using loss-of- and restoration-of-function approaches, we found that GATA2 function is mainly focuse...
GSE152453: Transcriptomic profile of cord blood B cells and thymic B cell subsets in human neonates
We reported two major thymic B cell subsets (CD21+CD35+ and CD21-CD35-) with different morphology, f...
GSE81489: In fetal testis, SOX9 acts on transcription and splicing of its targets genes through binding to genomic regions with conserved signatures [RNA-seq]
In mammals, male fate is under the control of the master transcriptional regulator, SOX9: in its pre...
GSE76466: The helix-loop-helix protein ID2 governs NK cell fate by tuning their sensitivity to interleukin-15
The inhibitor of DNA binding 2 (Id2) is essential for NK cell development with its canonical role in...
GSE104105: Transcriptional profiling of MDA-MB-231 and its 0 cells (lacking mtDNA) after 48h arginine depletion by arginine deiminase (ADI).
In this study, the effect of arginine deprivation on global gene expression in MDA-MB-231 and its 0 ...
GSE101675: Integrative Proteomic Profiling Reveals PRC2-Dependent Epigenetic Crosstalk Maintains Ground-State Pluripotency.
The pluripotent ground state is defined as a basal state free of epigenetic restrictions, which infl...
GSE87748: An electrical pulse stimulation protocol to study acute epigenetic response to muscle cell contraction uncovers acute hydroxymethylation of the exercise-responsive gene Nr4a3 [RNA-Seq]
Physical exercise triggers numerous positive adaptations through the regulation of genes controlling...
GSE86053: Human Osteosarcoma Transcriptome
Osteosarcoma (OS) is one of the most aggressive bone malignancy. Sub-optimal therapy has irretrievab...
GSE83584: Transcriptome profiling of self-renewing hESCs and multipotent mesoderm progenitor cells as a function of substrate stiffness
We performed RNA-sequencing on human embryonic stem cell samples grown on soft (400Pa) and stiff (60...
GSE84535: Next-generation sequencing and quantitative analysis of wild type and p110gamma -/- tumors and tumor-associated macrophages
Purpose: The goals of this study were to identify quantitative gene expression differences between w...
GSE85019: CXXC1-mediated Epigenetic Maturation is Crucial for Development Competence of Mouse Oocyte
Through RNA-seq of wildtype and CFP1-deleted GV oocytes of different ages, zygotes and 2-cell embryo...
GSE83762: NFIA Controls the Brown Fat Gene Program by Co-Localizing with PPARgamma at Cell-Type-Specific Enhancers (RNA)
Brown fat dissipates energy as heat and protects against obesity. Here, we identified nuclear factor...
GSE85455: ADAR1 controls apoptosis of stressed cells by inhibiting Staufen-mediated mRNA decay
Both p150 and p110 isoforms of ADAR1 convert adenosine to inosine in double-stranded RNA (dsRNA). T...
GSE95132: Coding and noncoding transcriptome sequencing of KRAS mutated colorectal tumors and adjacent tissues from cancer patients and KRAS mutated Aberrant Crypt Foci and matching normal crypts from healthy individuals [RNA-Seq]
Colorectal cancer (CRC) is characterized by genome-wide alterations to DNA methylation that influenc...
GSE77456: PHF6 regulates B-cell identity in acute lymphoblastic leukemia [RNA-Seq]
Inactivating mutations in the zinc finger gene PHF6 are seen in approximately 40% of adult T-cell ac...
GSE83415: CD4+ T Cells Gene Expression-Based Biomarkers in Juvenile Idiopathic Arthritis (JIA)
Aim: To discovery biomarkers in JIA base on gene expression from RNA sequencing on CD4+ T Cells; Met...
GSE95782: Differential gene expression of mouse liver samples after poly I:C treatment
To understand differential gene expression globally with/without poly I:C treatment on liver cancer ...
GSE85976: Collecting Duct-Specific Inactivation of HNF-1 Leads to Fibrocystic Disease and Impaired Urinary Concentration
Hepatocyte nuclear factor-1 (HNF-1) is an essential transcription factor that regulates tissue-speci...
GSE120299: Human Pancreatic Islets Expressing HNF1A Variant Have Defective cell Transcriptional Regulatory Networks
Using an integrated approach to characterize the pancreatic tissue and isolated islets from a 33-yea...
GSE83992: An improved method for identifying biological circular RNAs
Purpose: We are using the illumina sequencing to compare the false positive and true positive circul...
GSE112730: Deficient LRRC8A-dependent Volume-Regulated Anion Channel (VRAC) activity is associated with male infertility in mouse and humans
We reported the essential function of Lrrc8a on germline development SOURCE: Jianqiang Bao (jbao2@md...
GSE83125: Major Facilitator Superfamily Domain Containing 7C (Mfsd7c) Mediates the Effects of Heme on Cell Metabolism, Motility and Transcription
Dysfunctional mutations of major facilitator superfamily domain containing 7C (Mfsd7c) are associate...
GSE78270: Transcriptome profiling in knock-in mouse models of Huntington's disease (cerebellum_mRNA).
Huntington's disease (HD) is an autosomal dominant neurodegenerative disorder that is characterized ...
GSE149661: CD8+ T-cells infiltrate Alzheimers disease brains and regulate neuronal- and synapse-related gene expression in APP-PS1 transgenic mice
Neuroinflammation is a major contributor to disease progression in Alzheimers disease (AD) and is ch...
GSE85519: Expression profiling of cochlear ducts from P8 Gfi1cre/+ and Gfi1+/+ mice
The Gfi1-Cre mouse is commonly used for conditional hair cell-specific gene deletion/activation in t...
GSE83592: JQ1 +/- Vemurafenib in BRAF mutant melanoma (A375)
The combination of JQ1 and Vemurafenib acted synergistically in BRAF-mutant cell lines, resulting in...
GSE86901: Evolutionary re-wiring of p63 regulatory landscape has both epigenetic and transcriptomic implications and is the underlying cause for epidermal differences between mouse and human [RNA-seq]
Gene expression analysis of two different mouse keratinocytes using RNA-Seq SOURCE: Rose-Anne Roman...
GSE87565: High fat diet-induced changes of mouse hepatic transcription and enhancer activity can be reversed by subsequent weight loss
In this setup we have used RNA-seq, DHS-seq, and H3K27ac ChIP-seq to identify changes in transcripti...
GSE84013: Reprogrammed neurons from adult dermal fibroblasts of patients with Huntington's disease
Reprogrammed neurons from adult dermal fibroblasts of patients with Huntington's disease SOURCE: Bo ...
GSE92486: Dietary restriction protects from age-associated DNA methylation and induces epigenetic reprogramming of lipid metabolism
Dietary restriction (DR), a reduction in food intake without malnutrition, increases most aspects of...
GSE82336: Perlman syndrome nuclease DIS3L2 controls cytoplasmic non-coding RNAs and provides surveillance pathway for maturing snRNAs
The exosome-independent exoribonuclease DIS3L2 is mutated in Perlman syndrome. Here we used extensiv...
GSE81882: Identification of a distinct IL-10 producing subset of innate lymphoid type-2 effector cells with regulatory potential
ILC210 represent a distinct effector population of ILC2 cells that have regulatory potential SOURCE:...
GSE150560: Comparative transcriptome of cancer cells with enhanced brain tropism
Comparative transcriptome analysis of WM266.4 versus WM266.4-BrM3 human melanoma cells and PC9 versu...
GSE83601: Dysregulated immune system networks in war veterans with PTSD
Purpose: RNA-Seq analysis can help identify large set of differentially expressed genes at a time. W...
GSE87181: RNAseq in Pax7-reprogrammed corticotropes AtT-20 cells
Deployment of a cell-specifying enhancer repertoire by the pioneer factor Pax7; The establishment an...
GSE77472: The mammalian LINC complex controls mechanosensing at a genome-wide level: RNA-Seq
Mechanical cues influence the shape, growth, and function of tissues and organs and are necessary fo...
GSE89010: Haploinsufficiency of Ehmt1 or Ehmt2 is associated with an unexpected increase in H3k9 methylation
Kleefstra syndrome is human intellectual disability (ID) syndrome caused by haploinsufficiency of th...
GSE94543: Next Generation Sequencing analysis using splenic DCs freshly isolated from Wild Type and TBK1-DKO mice
In this experiment, we analyzed the gene expression profile of WT and TBK1-deficient splenic DCs by ...
GSE83988: HIF-1 activation is sufficient for the development of MDS
Hypoxia inducible factor-1 (HIF-1) is a critical transcription factor for the hypoxic response, angi...
GSE97544: Striatal transcriptome analysis of Shank3-overexpressing mice
Shank3 is a core excitatory postsynaptic protein enriched in the striatum. We have previously genera...
GSE115529: Mixed tailing by TUT3 and TUT5 shields mRNA from rapid deadenylation [RNA-Seq]
RNA tails play integral roles in the control of mRNA translation and decay. Guanylation of poly(A) t...
GSE84547: Loss of Uhrf1 in neural stem cells leads to activation of retroviral elements and delayed neurodegeneration [E16VZ]
In order to understand if early epigenetic mechanisms instruct the long-term behaviour of neural ste...
GSE83631: Transcriptional profiling of mouse embryonic tissues with Firre deletion
Firre is a long non-coding RNA expressed dynamically in a variety of tissues throughout mouse develo...
GSE83795: SHARPIN regulates collagen architecture and ductal invasion in the developing mouse mammary gland
Primary mammary gland stromal fibroblasts from pubertal SHARPIN-deficient cpdm/cpdm -mice and their ...
GSE115928: Characterization of molecular changes at meiotic initiation in mice
Characterization of the molecular changes occurring at murine meiotic initiation: identification of ...
GSE151576: Histone H3 Lys27 trimethylation readout by a BAH domain of BAHCC1 directs gene silencing [RNAseq_jurkat_O3SH2_RS4SH2]
The Polycomb Repressive Complex 2 (PRC2) and its trimethylation of histone H3 at lysine 27 (H3K27me3...
GSE137494: Cell-type specific dysregulation of RNA alternative splicing in short tandem repeat mouse knockin models of myotonic dystrophy
Short tandem repeats (STRs) are prone to expansion mutations that cause multiple hereditary neurolog...
GSE99537: Modulation of Macrophage Subpopulation Response in Radiation-Treated Gliomas Circumvents Tumor Recurrence
Thorough examination of tumor associated macrophage/microglia have shed light into their pro-tumorig...
GSE83999: Modulation of ESRP2 and MBNL2 in normal kidney and clear cell renal cell carcinoma cell lines for analysis of stability programs
While analyzing mRNA expression profiles of clear cell renal cell carcinoma (ccRCC) tumors, we found...
GSE115732: Genome-wide transcriptome analysis of regulatory T cells induced by Sox12
We analyzed RNA-seq of regulatory T cells recovered from DSS-colitis mice. We also transduced Sox12 ...
GSE122496: PRC2 inactivation cooperates with JAK3 mutant signaling in the development of T-cell acute lymphoblastic leukemia
T-ALL is characterized by deregulation of transcriptional control and impairment of epigenetic homeo...
GSE129495: KLF4 binding is involved in the organization and regulation of 3D enhancer networks during acquisition and maintenance of pluripotency [RNA-seq]
Cell fate transitions are accompanied by global transcriptional, epigenetic and topological changes ...
GSE83990: Zone dependent distinctive gene expression profile of the normal human liver tissue
The regulatory mechanisms that shapes the hepatic zonation is not well understood. In addition, the ...
GSE83436: Transcriptome analysis of mouse IgG1 memory B cell subsets
IgE plays an essential role in the pathogenesis of allergies and its production is strongly regulate...
GSE77067: RNA-sequencing of single whole cells and nuclei from mouse dentate granule cells
Single-cell sequencing methods have emerged as powerful tools for identification of heterogeneous ce...
GSE83637: RNA-seq transcriptome analysis of epidermal CD8+CD103+CD49a+ and CD8+CD103+CD49- T cells from healthy human skin
We report the transcriptome analysis of epidermal CD8 tissue resident memory T (TRM) cells from heal...
GSE84055: Gene Expression Profiling Using Huntington Disease Cell Culture Model
To identify genes affected by mutant huntington protein, we performed mRNA-seq experiments with Stri...
GSE109823: Expression levels of genes of NKG2C+ NK cells after in vitro treatment
RNA-Seq and comparison of gene expression levels was performed of FACS-sorted viable CD56+ NKG2C+ NK...
GSE156496: Transcriptome analysis of the TA muscles from WT and Dmd Exon 51 Knockout mice
Duchenne muscular dystrophy (DMD) is a fatal muscle disorder characterized by cycles of degeneration...
GSE93820: Resident Macrophages are Locally Programmed for Silent Clearance of Apoptotic Cells
Although apoptotic cells (ACs) contain nucleic acids that can be recognized by Toll-like receptors (...
GSE85049: Mll3 suppresses tumorigenesis by activating the Ink4a/Arf locus [RNA-seq]
Mutations in genes encoding epigenetic regulators are among the most frequent somatic events in huma...
GSE102020: The role of IRF6 in salivary gland development
Loss of Irf6 leads to disruption of branching morphogenesis and secretory acnii formation in salivar...
GSE76491 (mouse): Coordination of neuron production in mouse and human cerebral cortex by the homolog of Drosophila Mastermind protein
The coordination of progenitor self-renewal, neuronal production and migration is essential to the n...
GSE84073: Patient-derived organoid cultures model human primary liver cancer in vitro
The study of human liver cancer has been hampered by the lack of reliable models that faithfully rec...
GSE84112: Global analysis of selenoprotein expression reveals differential roles for Secisbp2 in UGA redefinition and mRNA stabilization
We describe the effects of knocking out the Secisbp2 and Trsp genes on selenoprotein expression and ...
GSE99816: Genome wide gene expression profiling of ileal fibroblasts obtained from Crohns disease and control patients
The Illumina NextSeq500 was used to sequence the gene expression profiles of 21 ileal fibroblast sam...
GSE129511: Pro-inflammatory cytokine blockade attenuates myeloid expansion in a murine model of rheumatoid arthritis
This study identifies molecular changes in hematopoietic stem cells (HSC) isolated from mice with ch...
GSE155907: Super Enhancer Regulation of Cytokine-Induced Chemokine Production in Alcoholic Hepatitis [RNA-Seq]
Super enhancer in liver propagates inflammatory signaling by super enhancer-mediatedinducing chemoki...
GSE83793: Depletion of Nsd2-mediated histone H3K36 methylation impairs adipose tissue development and function
Histone tails are post-translationally modified at multiple sites, includingLys36 on histone H3 (H3K...
GSE76505: Dynamic epigenomic landscapes during early lineage specification in mouse embryos
In mammals, all somatic development originates from lineage segregation in early embryos. However, t...
GSE123523: Comparing transcriptomic analysis using QuantSeq and RNA-Seq with Salmon quantification and Tophat2 mapping
We have compared a relatively new method for RNA 3 prime sequencing, QuantSeq with traditional RNA-S...
GSE84899: Cdx and T Brachyury co-activate growth signaling in the embryonic axial progenitor niche.
In vertebrate embryos, anterior tissues are generated early, followed by the other axial structures ...
GSE83684: Ribosome Profiling analysis of Follicular B (FoB) cells purified from WT, miR-17~92 transgenic and miR-17-92 tKO mice
We have generated a miR-17~92 transgene and fl/fl allele whose expression can be turned on and off c...
GSE90036: Abnormal interneuron development in a new humanized mouse model of Arx dup24 which recapitulates the patients behavioural and fine motor alterations
The Aristaless-related homeobox (ARX) gene is a transcription factor involved in the development of ...
GSE121799: Evidence for functional interactions between the placenta and brain in pregnant mice
In this study, we profiled gene expression of maternal brain, fetal brain and placenta at day 15 of ...
GSE89603: Next Generation Sequencing Facilitates Quantitative Analysis of Wild Type and Pax9-/- Palate shelves Transcriptomes
Nonsyndromic clefts of the palate and/or lip are common birth defects arising in about 1/700 live bi...
GSE113919: Brain vascular transcriptomes of mouse hyperglycemia mutants and controls
Purpose:To take a comprehensive effort in characterizing the brain vasculature gene expression upon ...
GSE138097: Photoreceptor Otx2 cKO
Homeobox transcription factor Otx2 is a key actor in retinal development, but in adult stage its fun...
GSE76552: Abnormal X chromosome inactivation and sex-specific gene dysregulation after ablation of FBXL10
The FBXL10 protein (also known as KDM2B, JHDM1B, CXXC2, and NDY1) is bound to essentially all CpG-ri...
GSE83688: Determination of key transcriptional changes in VhlF/FPbrm1F/FKsp-Cre kidney tumors
To investigate whether transcriptional aberrations might be responsible for the formation of kidney ...