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Sequencing-based assays (Page 47)
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GSE89503: PC1/3 deficiency impacts POMC processing in human embryonic stem cell-derived hypothalamic neurons
We developed a technique for generating hypothalamic neurons from human pluripotent stem cells. Here...
GSE83848: Tumor Interferon Signaling Regulates a Multigenic Resistance Program to Immune Checkpoint Blockade [RNA-Seq]
The goal of this study is to investigate if interferon signaling regulates immune checkpoint blockad...
GSE103509: Transcription factor NKX3-1 is required for reprogramming to pluripotency and can replace OCT4 in mouse and human iPSC induction [RNA-seq]
Resolution of early molecular events preceding endogenous OCT4 activation is critical to understandi...
GSE87441: The transcription factor Sp3 cooperates with HDAC2 to regulate synaptic function and plasticity in neurons
The histone deacetylase HDAC2, which negatively regulates neuronal plasticity and synaptic gene expr...
GSE83841: Analyses of IL-17-producing CD8 T cells
Transcriptional profiling of conventional and novel CD8 T cell subsets using RNA sequencing SOURCE: ...
GSE83647: Aneuploidy triggers an immune response
Aneuploidy, a state of karyotype imbalance, is a hallmark of cancer. Changes in chromosome copy numb...
GSE153692: Transcriptome analyses in glioma
To identify glioma-related RNAs, we used four glioma patients' fresh tumor tissues and normal tissue...
GSE89270: The RNA-binding landscape of RBM10 and its role in alternative splicing regulation in models of mouse early development
Mutations in the RNA-binding protein, RBM10, result in a human syndromic form of cleft palate, terme...
GSE84914: Zac1 is a regulator of the imprinted gene network (RNA-seq)
In order to determine the imprinted transcription factor Zac1 targets, we overexpressed Zac1 in a mo...
GSE137631: Effects of exercise training on skeletal muscle insulin sensitivity in obesity patients undergoing RYGB surgery: a randomized controlled trial
We reported that skeletal muscle insulin sensitivity was restored to a lean phenotype with exercise ...
GSE137535: Gene expression profiling of MDA_MB_231 cell line in response to treatment with Dexamethasone and SH4-54
To determine how the transcription factors GR and STAT3 cooperate to regulate gene expression, the M...
GSE81390: Dpy30 Is Critical for Maintaining the Identity and Function of Adult Hematopoietic Stem Cells
As the major histone H3K4 methyltransferases in mammals, the Set1/Mll complexes play important roles...
GSE115259: Comprehensive RNA-Seq profiling in PBMCs of ALS patients and healthy controls
Coding and long non-coding RNA metabolism is now revealing its crucial role in Amyotrophic Lateral S...
GSE86071: Next Generation Sequencing Facilitates Quantitative Analysis of Wild Type and Stat3f/f K5cre Skin Transcriptomes
Atopic dermatitis (AD) is a common chronic skin disease, affecting >15% of children and 2-10% of adu...
GSE137888: RNA-seq in Prdm16 KO doudenal and villi
RNA was extracted from duodenal villi from crontrol and Prdm16 KO mice 3 days after deletion SOURCE:...
GSE78045: p53 is a critical regulator of airway epithelial progenitor cell homeostasis.
How progenitor cells regulate quiescence and differentiation is poorly understood. Here, we demonstr...
GSE83501: Human Single Cells - Local lung hypoxia determines epithelial fate decisions during alveolar regeneration
Single human lung epithelial cell transcriptomes, isolated and processed via Fluidigm C1 SOURCE: And...
GSE89195: Investigating the effect of NIK SMI1, a small molecule inhibitor of NIK, on TWEAK-stimulated Mouse renal proximal tubule-interstitial epithelial cells (RPTEC)
Systemic lupus erythematosus (SLE) is often considered a disease driven by autoreactive B cells and ...
GSE86004: Loss of HDAC-mediated repression and gain of NF-kB activation underlies cytokine induction in ARID1A and PIK3CA mutation-driven ovarian cancer
ARID1A is frequently mutated in ovarian clear-cell carcinoma (OCCC) and often co-exists with activat...
GSE81411: The Genetic Networks that Orchestrate Development of Specific Waves of Fetal and Adult B-1 and B-2 Development are Distinct
B lymphocyte development is often depicted as a linear process that initiates in the fetus and conti...
GSE140346: Next Generation Sequencing Facilitates Quantitative Analysis of PHB-knockdown and PHB-knockout Spermatocytes Transcriptomes
We analyzed the transcriptomic differences of cultured mouse spermatocytes (GC2 cells) stably transf...
GSE86929: Single cell RNA sequencing analysis of bacterial lipoprotein-induced polyploid macrophages.
Granulomas are immune cell aggregates formed in response to persistent inflammatory stimuli. Granulo...
GSE97735: Expression profiling of AMPK-regulated genes in mouse embryonic fibroblast cells
We used RNA-Seq assay to characterize AMPK-regulated gene expression patterns and then compared with...
GSE84553: An essential role for the IL-2 receptor in Treg cell function
Regulatory T (Treg) cells, expressing abundant amounts of the IL-2 receptor (IL-2R), are reliant on ...
GSE84915: Single cell RNAseq for human female ESCs
Sigle cell RNAseq for human female embryonic stem cells and the differentiated cells by BMP4 treatme...
GSE83865: Myc and YAP roles in the control of the cell cycle [Liver RNA-seq]
RNAseq analysis was performed on liver of tet-YAP and tet-Myc transgenic mice induced for 2 days (...
GSE79848: RNA-Seq Quantification of Xenobiotic Processing Genes in Various Sections of the Intestine in Comparison to the Liver of Male Mice
This study aimed to quantify and compare the mRNA abundance of all major XPGs in liver and intestine...
GSE84169: Changes in human endometrial gland transcriptome over the window of implantation
Human endometrial glands from early, mid and late secretory phases were captured using laser microdi...
GSE98764: Modeling Progressive Fibrosis with Pluripotent Stem Cells Identifies an Anti-Fibrotic Small Molecule
Progressive organ fibrosis accounts for one third of all deaths worldwide, yet preclinical models th...
GSE99304: The stress granule transcriptome reveals principles of mRNA accumulation in stress granules.
Stress granules are mRNA-protein assemblies formed on nontranslating mRNAs. Stress granules are impo...
GSE83736: Vav proteins are key regulators of Card9 signaling for innate antifungal immunity
Fungal infections are major causes of morbidity and mortality, especially in immunocompromised indiv...
GSE90693: RNA-seq of TPR50 Tau P301S Transgenic Mouse in different brain regions and time-points
Purpose: The goal of this study was to assess gene expression changes in TPR50 Tau transgenic mice. ...
GSE83240: Hepatic transcriptome in CUGBP1 S302A knock-in mice highlights CUGBP1 degradation by Gankyrin through DEN activation, leading to fatty liver and liver cancer
Purpose: CUGBP1 is an important regulator of liver homeostasis, through splicing regulation, stabili...
GSE134396: Paradoxical association of TET loss of function with genome-wide hypomethylation
Cancer genomes are characterized by focal increases in DNA methylation, co-occurring with widespread...
GSE83873: Chx10 consolidates V2a interneuron identity through two distinct gene repression modes [RNA-Seq]
During development, two cell-types born from closely related progenitor pools often express the iden...
GSE84158: Transcriptome changes during the differentiation of myoblasts into myotubes
This study aimed to interrogate the interrelationship between 3D genome organization and global gene...
GSE107284: Transcriptomic profiling of ex vivo isolated CD3+CD4+ T cells from spleens of colitic Rag-/- mice received nave ERfl/fl and CD4CreERfl/fl CD4+ T cells
To study the role of estrogen receptor alpha (ER) in T cell mediated inflammation, colitis was induc...
GSE76853: Acetyl-CoA metabolism by ACSS2 regulates neuronal histone acetylation and long-term memory [RNA-seq]
Metabolic production of acetyl-CoA has been linked to histone acetylation and gene regulation, howev...
GSE144360: microRNA-seq of cartilage reveals an over-abundance of miR-140-3p which contains functional isomiRs (RNA-seq)
RNA-seq of RNA isolated form costal chondrocytes of mice at post-natal day 7 SOURCE: David Young (da...
GSE84577: Integrated analyses identify phenotype specific BMP4 signaling in breast cancer [RNA-seq]
Bone morphogenetic protein 4 (BMP4) plays an important role in cancer pathogenesis. In breast cancer...
GSE84945: Next Generation Sequencing Facilitates Quantitative Analysis of Wild Type and FXRalpha-/- testicular Transcriptomes
The goals of this study are to define the putatitve impacts of FXRalpha deficiency in testicular phy...
GSE92677: Kmt2b conveys monovalent and bivalent H3K4me3 in spermatogonial stem cells at germline and embryonic promoters
The mammalian male germline is sustained by a pool of spermatogonial stem cells (SSCs) that can tran...
GSE137501: Transcriptomic profiling of ZMPSTE24 knockout endothelial cells: implication of endothelial dysfunction in HGPS
Hutchinson-Gilford progeria syndrome (HGPS) is an ultrarare and fatal disease with features of prema...
GSE98132: Adipose tissue from -3 agonist-treated mice
We previously established the transcription factor Zfp423 is critical for maintaining white adipocyt...
GSE119498: Haploinsufficiency of the intellectual disability-gene SETD5 disturbs developmental gene expression and cognition
SETD5 gene mutations have been identified as a frequent cause of idiopathic intellectual disability....
GSE117614: RNA-seq analysis of canonical and adaptive human NK cell and CD8+ T cell subsets from HCMV seropositive donors
We report our results of RNA-seq analysis on freshly isolated, sorted subsets of cytotoxic lymphocyt...
GSE106246: An evolutionarily conserved ribosome-rescue pathway maintains epidermal homeostasis
mRNA quality control mechanisms ensure fidelity of protein translation. An evolutionarily conserved ...
GSE82333: INO80 governs super-enhancer-mediated oncogenic transcription and tumor growth in melanoma [RNA-seq]
Super-enhancers (SEs) are large genomic regions with high density of enhancer marks. In cancer, SEs ...
GSE81672: Ketamine and Imipramine Reverse Transcriptional Signatures of Susceptibility and Induce Resilience-Specific Gene Expression Profiles
Background: Examining transcriptional regulation by existing antidepressants in key neural circuits ...
GSE109876: Bi-directional interaction between mesenchymal stem cells and transit amplifying cells in mesenchymal tissue homeostasis [MSCTAC]
We sequenced mouse incisor mRNA from one-month-old Gli1-CreER;tdT and Axin2-CreER;tdT mice to compar...
GSE83854: Differentiation and specification of resident tissue macrophages [ID3-KO RNA-seq]
Tissue resident macrophages are functionally diverse cells that share an embryonic mesodermal origin...
GSE86931: Exercise-induced transcriptome changes in skeletal muscle adapted to aerobic training
We sequenced mRNA in vastus lateralis muscle samples from two amateur endurance-trained men (V 2max ...
GSE89280: Integrative analysis of single-cell ATAC-seq and RNA-seq using Self-Organizing Maps [scRNA-Seq]
We have developed a computational approach that uses self-organizing maps for integrative genomic an...
GSE85131: T cell oxygen-sensing proteins establish an immunologically tolerant metastatic niche
Cancer cells must evade immune responses at distant sites to establish metastases. The lung is a fre...
GSE89553: Time course of mesenchymal breast cancer cells (MTECad) undergoing transdifferentiation into terminally differentiated adipocytes
A high degree of cell plasticity seems to promote malignant tumour progression, and an epithelial-me...
GSE83724: PAX3-FOXO1 requires BRD4 to drive oncogene addiction in RMS cells [RNA-seq]
The fusion transcription factor PAX3-FOXO1 drives oncogenesis in a subset of rhabdomyosarcomas, howe...
GSE141027: Reduced lipolysis is a common lipid accumulation mechanism for different subtypes of lipomas
We used RNA-seq to inquire gene expression profiles of lipomas with HMGA2-fusions and without gene f...
GSE84237: Integrated Systems Biology Analysis of KSHV Latent Infection Reveals Viral Induction and Reliance on Peroxisome Mediated Lipid Metabolism
Kaposis Sarcoma herpesvirus (KSHV), an oncogenic virus, modulates host cell signaling and metabolism...
GSE86949: RNAseq data from mouse beta-cells expressing mutant (GCK Y214C) versus wild-type Glucokinase
The goal of this study is to compare the transcriptome of mouse beta-cells expressing mutant constit...
GSE83551: RNA-seq in HepG2 and IMR90 cells
Expression analysis in HepG2 and IMR90 cells in presence of Fluc siRNA or sPom121 or Nup98 siRNA SOU...
GSE83734: Absolute quantification of B cell transcriptome using ERCC spiked-in RNA
RNA-seq analysis of with known quantity of cell numbers and reference RNA (ERCC) to determine absolu...
GSE80313: Role of COP1 on MAP kinase transcriptional output in melanoma
COP1 regulates MAP kinase dependent stability Pea3 transcription factors. We determined the role of ...
GSE128471: Benzo[a]pyrene and dibenzo[def,p]chrysene in 3D primary human bronchial epithelial cells [RNA-seq]
In this study, we assess potential differences in mechanism of action for two PAHs, benzo[a]pyrene (...
GSE77693: Loss of Trex1 in dendritic cells is sufficient to trigger systemic autoimmunity
Biallelic defects of the gene encoding for the intracellular enzyme 3 repair exonuclease (Trex)1 cau...
GSE139674: Molecular basis for autosomal-dominant renal Fanconi syndrome caused by HNF4A
A specific missense mutation in the DNA binding domain of HNF4A, R85W, causes Fanconi renotubular sy...
GSE83961: ASXL1 Interacts with the Cohesin Complex to Maintain Chromatid Separation and Gene Expression for Normal Hematopoiesis [RNA-Seq]
ASXL1 is frequently mutated in a spectrum of myeloid malignancies with poor prognosis. Loss of Asxl1...
GSE157100: Mouse Olfactory Epithelium, whole olfactory mucosa, mouse
The lineage of wild-type horizontal basal cells (HBC) stem cells from the olfactory epithelium were...
GSE85443: Transcriptome analysis identifies the dysregulation of ultraviolet target genes in human skin cancers
In this study, we performed RNA-Seq studies to generate a transcriptomic cohort containing UV-respon...
GSE84252: RNA sequencing of C57BL/6NJ (B6NJ) x C57BL/6J (B6J) - F2 mice
RNA-seq analysis of 16 B6J x B6NJ-F2 mice which are homozygous for either the wild-type B6J allele (...
GSE143507: RNA sequencing data of peripheral blood isolated from Korean patients with Crohn's disease.
We performed RNA sequencing to produce expression quantitative trait loci (eQTL) database of Crohn's...
GSE86955: Newborn and young adult (2 months) mouse dorsal skin cell culture time-series RNA-Seq
Organoid formation is critical to the progress of regenerative medicine. We use the formation of ski...
GSE99049: Sp9 regulates medial ganglionic eminence-derived cortical interneuron development
In the mammalian cortex, about 60% of GABAergic interneurons, mainly including parvalbumin-expressin...
GSE81082: RNA-Seq analysis of Gtf2ird1 knockout epidermal tissue provides potential insights into molecular mechanisms underpinning Williams-Beuren syndrome
Using a targeted Gtf2ird1 knockout mouse, we employed massively-parallel sequencing of mRNA (RNA-Seq...
GSE89511: CD86 regulates a pro-survival signal in myeloma cells
While multiple myeloma patient prognosis has improved over the past decade, research towards discove...
GSE107505: NANOG assists in the establishment and maintenance of pluripotency by amplifying multiple signaling pathways
Identification of NANOG transcribed factors during the establishment of pluripotency SOURCE: Catheri...
GSE87870: Next gen RNA sequencing of mouse acute myeloid leukemia
Trascriptome analysis of aml samples were performed SOURCE: Nuri,Alpay,Temiz University of Minnesota
GSE85020: Epigenetic silencing of the tumor suppressor RASSF4 favors multiple myeloma progression
RAS is frequently mutated in multiple myeloma (MM) leading to aberrant signaling. Next to their clas...
GSE90566: Krppel-like Transcription Factor-10 (KLF10) Provides a Negative Feedback Mechanism to Suppress TGF-Induced Epithelial-to-Mesenchymal Transition [RNA-Seq]
We examined transcriptome-wide effects of pertrurbation in KLF10 function (siKLF10) on TGF-regulated...
GSE93279: RNA sequencing of organoids isolated from pancreatic cancer mouse model KRASG12D; p53R172H; Ptf1a-Cre.
We studied the transcriptomics of pancreatic ductal adenocarcinoma (PDAC) and the role of a splicing...
GSE90574: A lncRNA fine tunes the dynamics of a cell state transition involving Lin28, let-7 and de novo DNA methylation
Execution of pluripotency requires progression from the nave status represented by mouse embryonic s...
GSE157214: RNA-seq analysis of MCF7 cells treated with abemaciclib, SR11302
We measured changes in gene expression in MCF7 with CDK4/6 and AP-1 inhibition by abemaciclib and SR...
GSE84615: Tissue-specific Emergence of Regulatory and Intraepithelial T Cells from a Clonal T-cell Precursor
We used RNA sequencing to characterize gene expression of CD4+ CD8+ double positive (DP), Foxp3+ Tre...
GSE94384: RNA sequencing of primary human platelets and in vitro cell lines
Platelets are anucleate cytoplasmic fragments that lack genomic DNA, but continue to synthesize prot...
GSE90091: Characterization of mouse embryonic stem cells without any G1 cyclins
We performed regular RNA-seq to understand G1 cyclins function in ES cells SOURCE: Lijun Liu (lljuna...
GSE84986: 53BP1 integrates DNA repair and p53-dependent cell fate decisions via distinct mechanisms
The tumor suppressor protein 53BP1, a pivotal regulator of DNA double-strand break (DSB) repair, wa...
GSE146946: RNA editing profile in miRNA loci in human [ADAR1 KO, Drosha KD]
We utilized the stranded RNA-seq and small RNA-seq to identify and quantify RNA editing events locat...
GSE86958: Transcriptome of invasive mucinous adnocarcinoma of the lung and adjacent normal lung tissues from 6 patients based on RNA-seq method
In order to identify genes that are highly expressed in human IMA, we performed mRNA-seq analysis us...
GSE90726: RNA sequencing of ESC/iPSC-derived purified PAX6-GFP neural progenitors form control and Phelan-Mcdermid patients
The goal of this study was to generated and transcriptionally analyze purified populations of Phelan...
GSE83146: Single-Cell RNAseq Reveals That Pancreatic -Cells From Very Old Male Mice Have a Young Gene Signature
Aging improves pancreatic -cell function in mice. This is a surprising finding since aging is typica...
GSE98705: Analysis of gene expression in p53-null cell types following deletion of Mdm2
RNA-sequencing was performed to gain insight into the mechanism responsible for the apoptosis and ce...
GSE77703: Distinct and shared functions of ALS-associated TDP-43, FUS, and TAF15 revealed by comprehensive multi-system integrative analyses [RNA-Seq_mouse]
TDP-43, FUS, and TAF15 are implicated in amyotrophic lateral sclerosis (ALS) and frontotemporal deme...
GSE85431: Targeting EZH2 in MYCN-amplified Neuroblastoma [RNA-seq]
Purpose: Identify new targets in MYCN-amplified Neuroblastoma; Methods: Kelly and LAN-1 neuroblasto...
GSE95194: Single-Cell RNA-seq study of E13.5 and P7 brain and Spinal Cord Pdgfra-GFP positive samples during development in Mice.
In order to elucidate the developmental origin of oligodendrocyte precursor cells (OPCs) and get a b...
GSE84636: Small molecule proteostasis regulators that reprogram the ER to reduce extracellular protein aggregation
Imbalances in endoplasmic reticulum (ER) proteostasis are associated with etiologically-diverse dege...
GSE110219 (mouse): JAK1/2 inhibitor therapy-associated lymphomas in myelofibrosis arising from a pre-existing B-cell clone
In this study, we elucidated differential gene expression between transformed and untransformed muri...
GSE95013 (human): AICDA-induced epigenetic plasticity accelerates germinal center-derived lymphomagenesis
Epigenetic heterogeneity is emerging as a significant phenotypic feature of tumors. In diffuse large...
GSE83520: Genome-wide expression screening discloses long noncoding RNAs involved in thyroid carcinogenesis
Context: Long non-coding RNAs (lncRNAs) regulate pathological processes, yet their potential roles i...
GSE77656: STAT5 paralog dose governs T cell effector and regulatory function
The transcription factor STAT5 is fundamental to the mammalian immune system. However, the relations...
GSE85553: Temperature regulates splicing efficiency of the cold-inducible RNA-binding protein gene Cirbp
In mammals body temperature fluctuates diurnally around a mean value of 36-37C. Despite the small di...
GSE77705: AMPK governs lineage specification through Tfeb-dependent regulation of lysosomes
Faithful execution of developmental programs relies on the acquisition of unique cell identities fro...