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Sequencing-based assays page 98
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GSE129858: Transcriptomic profiling of 4T1 cells depleted for Id1/3 and Robo1
Id1 and its closely related family member Id3 are expressed by a diversity of stem and progenitor ce...
GSE138746: Multi-omics and Machine Learning Accurately Predicts Clinical Response to Adalimumab and Etanercept Therapy in Patients with Rheumatoid Arthritis [RNA-Seq]
Objectives: To predict response prior to anti-TNF treatment and comprehensively understand the mecha...
GSE129306: Apical sodium-dependent bile acid transporter inhibition with volixibat improves metabolic aspects and components of non-alcoholic steatohepatitis in Ldlr-/-.Leiden mice
Abstract: Interruption of bile acid recirculation through inhibition of the apical sodium-depende...
GSE146063: Impact of human miR-887-3p on gene expression in human pulmonary microvascular endothelial cells
We report the results of RNA sequencing of total RNA isolated from human pulmonary microvascular end...
GSE129389: Tropifexor-Mediated Abrogation of Steatohepatitis and Fibrosis Is Associated With Antioxidative Gene Expression Profile in Rodents
Farnesoid X receptor (FXR) agonism is emerging as an important potential therapeutic mechanism of ac...
GSE140015: Mechanism of Mitochondrial Dysfunction in Spinal and Bulbar Muscular Atrophy [RNA-seq]
Spinal and bulbar muscular atrophy (SBMA) is a neuromuscular disorder caused by a polyglutamine expa...
GSE133179: Gene expression changes in ovaries of oocyte-specific conditional knockout of Ubc9 in juvenile mice
The reproductive lifespan in mammals is largely determined by the abundance and quality of oocytes r...
GSE137323: Developmental Cytoplasmic-to-Nuclear Translocation of RNA-Binding Protein HuR Is Required for Adult Neurogenesis
Although neurogenesis in the adult brain recapitulates processes that occur during embryonic develop...
GSE138769: RNA sequencing of whole Dorsal Root Ganglia (DRG) upon Environmental Enrichment and Sciatic Nerve Axotomy (EE_SNA) or Sciatic Nerve Axotomy alone (SH_SNA) compared to Standard Housing Sham (SH_Sham)
Purpose: compare the gene expression in whole DRG of mice: A) undergone to nerve axotomy vs control ...
GSE139059: TBL1XR1 mutations bias germinal center B-cells towards a pro-tumorigenic memory fate
Diffuse large B-cell lymphomas (DLBCL) encompass a heterogeneous group of diseases derived from diff...
GSE139090: Age-associated Changes in the Transcriptome of SCA7 Mice
Atxn7 repeat expansion mutations lead to ataxia phenotypes. Total cerebellar RNA from mice with norm...
GSE129691: Setd2 deficiency impaired erythroid differentiation and accelerated Myelodysplastic Syndrome(MDS) - associated leukemogenesis through S100A8 and S100A9
Setd2, the histone H3 lysine 36 methyltransferase, plays an important role in the pathogenesis of he...
GSE137389: Loss-of-function of the long non-coding RNA A830019P07Rik in mice does not affect insulin expression and secretion
Long non-coding RNAs (lncRNAs) contribute to diverse cellular functions and the dysregulation of the...
GSE141159: Transcriptome profiling of purified mouse platelets from Nxf1 mutant and control mice [Platelet]
Purpose: Nxf1 is thought to be an essential nuclear exporter of messenger RNA (mRNA) in eukaryotic c...
GSE140063: RNA-sequencing of control and wy-14643 treated livers in wt and sirt6-hz mice
wy-14643 activates PPARA to promote beta oxidation. SIRT6 is known to promote beta oxidation. Here w...
GSE132254: RNA Seq analyzed the transcriptional difference between the ICSI and ICAHCI embryo in blastocyst and placenta
Our lab first derived mouse androgenetic haploid embryonic stem cells (AG-haESCs) and demonstrated t...
GSE137347 (human): The transcriptomic landscape of MAIT cell development in the thymus (NN41 RNAseq data set)
We report the transcriptomic landscape of MAIT cell development by examining thymic immature stage 1...
GSE137430: A Phase 2 Randomized, Double-blind Pilot Study of IL-17-Targeting with 2 Secukinumab in Moderate-to-Severe Atopic Dermatitis
This randomized, double-blind, phase 2 study aimed to investigate the efficacy and safety of secukin...
GSE146053: A negative reciprocal regulatory axis between cyclin D1 and HNF4 modulates cell cycle progression and metabolism in the liver
This study examines the regulation of HNF4a by cyclin D1 in hepatic cell lines and mouse liver. SOUR...
GSE142996: DNA polymerase interacts with H3-H4 and facilitates the transfer to parental histones to lagging strand
How parental histones, the carriers of epigenetic modifications, are deposited onto replicating DNA ...
GSE139065: Sphingosine 1-phosphate-regulated transcriptomes in heterogenous arterial and lymphatic endothelium of the aorta
Despite the medical importance of G protein-coupled receptors (GPCRs), in vivo cellular heterogeneit...
GSE134871: Epigenetic and transcriptional changes in aging mouse rod photoreceptors [RNA-seq]
Aging-associated functional decline and disease susceptibility are believed to be mediated, at least...
GSE137463: Loss of the FOXP1 transcription factor leads to deregulation of B lymphocyte development and function at multiple stages
This study examined the loss of Foxp1 in B cells at different stages. RNA-seq was performed to exami...
GSE140090: Transcriptomic analyses during oocyte growth
Our aim is to characterize the role of the TBP2 protein during the growth of the oocyte. To that aim...
GSE152179: Characterization of a Novel Compound that Stimulates STING-Mediated Innate Immune Activity in an Allele-Specific Manner
A small molecule termed M04 behaves as a novel agonist of human STING. Importantly, we find that the...
GSE137793: Sex chromosomes affect gene expression of autoantigen specific CD4+ T cells in B6 gonadal males.
To determine the role of sex chromsomes in sex differences of autoimmune disease, we used high throu...
GSE131996: Neuropeptide CGRP limits ILC2 responses and constrains type 2 inflammation
Innate and adaptive lymphocytes work in concert to maintain tissue homeostasis and to mediate host d...
GSE139115: An ExtendedCulture System that Supports Human Primordial Germ Cell-Like Cells Survival and Initiation of DNA Methylation Erasure
In this study, we evalauted the transcriptionl profiles of human primordial germ cell-like cell (hPG...
GSE137506: Genome-wide expression analysis in murine brain in E14.5 vs. 10.5m old mice
NBS1 (Nbn in Mus musculus) is a critical component of the MRN (MRE11/RAD50/NBS1) complex, which regu...
GSE137856: Transcriptional Profiling of Werner Syndrome (WS) iPSC-derived MSC and the isogenic gene-edited controls
WS iPSC (iWS780) is a WRN-null iPSC line derived from AG00780 fibroblast. This iPSC line showed norm...
GSE140570: Tandem CTCF sites function as insulators to balance spatial chromatin contacts and topological enhancer-promoter selection [VI]
By CRISPR DNA-fragment editing, in conjunction with chromosome conformation capture, we find that CB...
GSE137555: Histone demethylase JMJD3 is a key epigenetic activator of FGF21 signaling-induced hepatic autophagy and lipid degradation
Autophagy is essential for cellular survival and energy homeostasis under nutrient deprivation. Desp...
GSE137349 (mouse): The transcriptomic landscape of MAIT cell development in the thymus (C006 RNAseq data set)
We report the transcriptomic landscape of MAIT cell development by examining thymic immature stage 1...
GSE139914: The genomic underpinnings of oscillatory biomarkers supporting successful memory encoding in humans
Brain oscillations are remarkable components of brain activity that support memory encoding. However...
GSE137914: Genome-wide mapping of gene expression in control and Tet2/Tet3-deficient B cell subsets
We report the global gene expression in Tet2/Tet3-sufficient and -deficient B cell subsets. We found...
GSE152058 (mouse): Cell Type-Specific Transcriptomics Reveals that Mutant Huntingtin Leads to Mitochondrial RNA Release and Neuronal Innate Immune Activation
The mechanisms by which mutant Huntingtin leads to neuronal cell death in Huntingtons disease are no...
GSE77308: Loss of CSL unlocks a hypoxic response and enhanced tumor growth potential in breast cancer cells
Notch signaling is an important regulator of stem cell differentiation. All canonical Notch signalin...
GSE132261: mTORC1 to AMPK Switching Underlies -Cell Metabolic Plasticity During Maturation and Diabetes
Pancreatic beta cells (-cells) differentiate during fetal life, but only postnatally acquire the cap...
GSE132313: The transcription factor Fosl2 controls systemic autoimmunity by repressing FoxP3 during T cell development
Purpose: We aimed to charaterise the transfriptional effects of Fosl2 in T cells; Methods: We used w...
GSE139933: The transcriptomic differences between Th1, Tr1, Treg, and Tneg cells in Leishmania donovani-infected mice
This study was designed to determine the differences in gene transcripts between CD4+ T helper (Th)1...
GSE137420: Synapse alterations precede neuronal damage and storage pathology in a human cerebral organoid model of CLN3-Juvenile Neuronal Ceroid Lipofuscinosis
We developed an invitro model for Juvenile Neuronal Ceroid Lipofuscinosis (JNCL) using isogenic CLN3...
GSE134606: Polysome profiling quantified by RNA sequencing in ER knockdown and control BM67 cells
Estrogen receptor alpha (ER) activity is associated with increased cancer cell proliferation. Studie...
GSE137344: Ileum Transcriptomic Profiling in Inflammatory Bowel Disease
We report ileum gene expression of 37 controls and 158 patients with either Crohn's disease (n=112),...
GSE132800: Liver macrophages inhibit the endogenous antioxidant response in obesity-associated insulin resistance [RNA-Seq]
Liver Macrophages exacerbate oxidative stress induced by hepatic steatosis in obesity by blocking th...
GSE142121: Interaction of Va and Vc in somatic cell reprogramming
Since VitaminA and VitaminC are pleiotropic vitamins, and both can promote reprogramming, we want to...
GSE137406: T cell receptor signal strength and antigen affinity differentially regulate memory CD8+ T cell development
IL-2 inducible tyrosine kinase (Itk) is a Tec family non-receptor tyrosine kinase that is known to r...
GSE137878 (mouse): Regulation of RNA localization by FMR1
We use subcellular fractionation to probe the regulation of RNA localization by FMR1 in neuronal cel...
GSE133413: COMPASS Family Histone Methyltransferase ASH2L Mediates Corticogenesis via Transcriptional Regulation of Wnt Signaling [RNA-Seq 2]
We show that the COMPASS family histone methyltransferase co-factor ASH2L is required in NPCs prolif...
GSE138729 (mouse): Induction of extracellular adenosine salvage and metabolic quiescence regulate the transitional to follicular B cell checkpoint in humans.
Transcriptional profiling of transitional and follicular B cells showed that metabolic quiescence wa...
GSE137440: Splicing and gene expression changes in human mammary epithelial MCF-10A cells expressing SR or SR-like proteins
RNA-seq data from human mammary epithelial MCF-10A cells expressing the coding sequence of SRSF2, SR...
GSE130765: Next Generation Sequencing Analysis of Beta-actin knockout (KO) and wildtype (WT) Mouse Embryonic Fibroblast (MEFs) Transcriptomes Under Adipogenic Induced Conditions
mRNA profiles of beta-actin knockout (KO) and wild-type (WT) MEFs induced to adipocyte-like feature ...
GSE129731: SMARTSeq_v4 paired end mRNA Seq of Kdm4a control mutant oocytes and preimplantation embryos
Purpose: The goal of this study was to generate paired-end mRNA Seq transcriptomes of control and Kd...
GSE143212: Analysis of gene expression modulated by autophagy during bleomycin induced lung injury from mouse lung alveolar progenitor cells
Autophagy is a cellular catabolic process that supports metabolism in response to stress. To identif...
GSE146147: A splicing regulatory axis of SRSF2-NUMB-NOTCH governs the generation of hemogenic endothelial progenitors derived from human pluripotent stem cells
Purpose: The goals of this study are to verify the dynamic changes of hematopoietic endothilium trea...
GSE137510: RNA-seq analysis of IL-17A+/IFNy+ CD8+ and IL-17A+CD4+ T cells from Psoriatic Arthritis Synovial Fluid
Psoriatic arthritis is a seronegative polyarticular form of inflammatory arthritis . Genetic analysi...
GSE137411: Bimodal Adenine and Cytosine CRISPR Base Editing on DNA
Adenine and cytosine base editors (ABEs and CBEs) represent a new genome editing technology that all...
GSE137920: RNA sequencing for human induced pluripotent stem cell cardiomyocyte differentiation
We apply short-read RNA sequencing technology to identify transcripts expressed during four time poi...
GSE137603: The splicing factor hnRNP M is a critical regulator for innate immune gene expression in macrophages
Purpose: The goals of this study are to compare hnRNP M shRNA knockdown macrophages to scramble shRN...
GSE142686: Early precursor T cells establish and propagate T cell exhaustion in chronic infection [RNA-seq]
TCF1+ precursors of exhausted T cells maintain T cell immunity during chronic infection and cancer a...
GSE137551: Transcriptomic profiles of nonpregnant and term pregnant human myometrial tissues
The myometrium undergoes structural and functional remodeling during pregnancy. We hypothesize that ...
GSE138784: RNA-seq on cells with or without pathogenic PAX1 variants at different stages of in vitro differentiation into thymic epithelial progenitor cells
Bi-allelic, loss-of-function PAX1 variants underlie a syndromic form of severe combined immunodefici...
GSE144136: Single-nucleus RNA-seq in the post-mortem brain in major depressive disorder
We performed high-throughput snRNA-seq using the 10X Genomics Chromium platform on archived post-mor...
GSE139389: Embryonic Endothelial Evolution towards First Hematopoietic Stem Cells Revealed by Single-Cell Transcriptomic and Functional Analyses
Hematopoietic stem cells (HSCs) in adults are believed to be born from hemogenic endothelial cells (...
GSE135902: The Transcriptome Of Cmml Monocytes Is Highly Inflammatory And Reflects Leukemia-Specific And Age-Related Alterations
Chronic myelomonocytic leukemia (CMML) is an aggressive myeloid neoplasm of older individuals charac...
GSE130302: The intestine harbours functionally distinct tissue-resident and inflammatory Th17 cells
Th17 cells are extensively studied because of their known pathogenic role in many inflammatory disea...
GSE142748: Transcriptional responses of colon tissues following ex-vivo colonization with human microbiome
Purpose: The goal of this study is to compare colonic transcriptional responses following ex-vivo co...
GSE139441: mRNA analysis in depolarized neuroblastoma cells
We profiled mRNA using RNA-seq in the depolarized neuroblastoma cells SOURCE: Ebrahim Mahmoudi (ebra...
GSE137458: Sirena1: The most abundant lncRNA in mouse oocytes brings together post-transcriptional regulations and mitochondrial distribution (mouse dev_stages)
Long non-coding RNAs (lncRNAs) are a large group of rapidly evolving non-coding RNAs. Tens of thousa...
GSE129927: Single cell RNA sequencing of myeloid cell subsets in brain trauma links targeting Ccr2-dependent macrophages with both improved functional outcomes and a reduction in type I IFN responses from TBI microglia subsets
Traumatic brain injury (TBI) induces neuroinflammatory innate immune responses that plays roles in b...
GSE138807: Comparative RNAseq of Mouse Parp3+/+ and Parp3-/- Neural Stem Progenitor Cells (NPSC)
To identify the biological pathways underlying impaired differentiation of Parp3-deficient NPSC to a...
GSE140914: Transcriptomic profiling of mesenchymal stem cells (MSC) differentiation into mesangial cells
Purpose: To study the pattern of transcriptomic changes during MSC differentiation into mesangial ce...
GSE151284: Glioma escape signature and clonal development under immune pressure [RNA-Seq]
Immunotherapeutic strategies are increasingly important in neuro-oncology and the elucidation of esc...
GSE140850: Tet3 ablation in adult brain neurons increases anxiety-like behavior and regulates cognitive function in mice
TET3 is a member of the Ten-eleven translocation (TET) family of enzymes which oxidize 5-methylcytos...
GSE139120: Lewis Lung Carcinoma UROD
We studied the effects of loss of UROD in lung cancer progression SOURCE: Shruthy Suresh UT Southwes...
GSE149014: Resident peritoneal macrophage exhibit marked sexual dimorphism in gene expression
Resident CD102+ peritoneal and plueral macrophages were FACS-sorted from unmanipulated male and fema...
GSE142754: Co-option of neutrophil fates by tissue environments
Classically considered short-lived, purely defensive leukocytes, neutrophils are unique in their fas...
GSE129188: Coagulopathy signature precedes and predicts severity of end-organ heat stroke pathology in a mouse model
Heat stroke is a life-threatening condition characterized by loss of thermoregulation and severe ele...
GSE138822: The Chromatin Remodeling Enzyme Chd4 Regulates Genome Architecture in the Brain
The development and function of the brain require exquisite control of gene expression. Genome archi...
GSE149004: 3 MACE RNA-Sequencing allows for Transcriptome Profiling in Long-Term Stored Human Tissue Samples
This study aims to compare the potential of standard RNA-sequencing (RNA-Seq) and 3 massive analysis...
GSE155480: RNA sequencing of CD8 T cells flow sorted from post-stroke brain
CD8 T cells functional profile was characterized by comparing the gene expression between the cells ...
GSE142815: Genome-wide maps of chromatin state and gene expression in mouse liver.
Using high throughput sequencing we report chromatin accessibility, H3K9 methylation status, and gen...
GSE140560: The RNA N6-methyladenosine regulates chromatin remodeling and transcription [HEC-1-A_seq_RNA_nuclear]
The N6-methyladenosine (m6A) has been shown to regulate stability and translation of messenger RNA (...
GSE137791: Sex chromosomes affect gene expression of healthy CD4+ T cells in B6 gonadal females.
To determine the role of sex chromsomes in sex differences of autoimmune disease, we used high throu...
GSE131291: Gata3 directly regulates cell cycle exit-coupled lens fiber cell differentiation in mouse embryonic lens
Gata3 is a DNA-binding transcription factor involved in cellular differentiation in a variety of tis...
GSE139145: Next Generation Sequencing Facilitates Quantitative Analysis of Wild Type and Pou4f3(/+) Cochlear Transcriptomes
We report application of RNA-seq for transcriptomic analyses of cochlear tissues from wildtype and D...
GSE134642: CD93 negatively regulates astrogenesis in response to MMRN2 through transcription repressor ZFP503 in the developing brain
Astrogenesis is repressed in the early embryonic period, and occurs in the late embryonic period. A ...
GSE140109: Myeloid-derived suppressor cells facilitie invasion and metastasis of papillary thyroid cancer cells by repressing miR-486-3p
BackgroundIn present study, we aimed to evaluate the level as well as function of circulating MDSCs ...
GSE129369: SMRT regulates metabolic homeostasis and adipose tissue macrophage phenotypes in tandem
The Silencing Mediator of Retinoid and Thyroid Hormone Receptors (SMRT) is a nuclear corepressor tha...
GSE139073: Multi-Parameter Analysis of Biobanked Human Bone Marrow Stromal Cells Shows Little Influence for Donor Age and Mild Comorbidities on Phenotypic and Functional Properties
Heterogeneous populations of human bone marrow-derived stromal cells (BMSC) are among the most frequ...
GSE142800: RNA-Seq and Ribo-Seq of P19 WT and SRSF7-GFP overexpressing cells
We used P19 cells that overexpress GFP-tagged SRSF7 by 3.4-fold. SOURCE: Michaela Müller-McNicoll (m...
GSE140143: Transplacental Innate Immune Training via Maternal Microbial Exposure: Role of XBP1-ERN1 Axis in Dendritic Cell Precursor Programming
Background: Maternal enviromnetal exposures during pregnancy can transplacentally train the developi...
GSE140851: Direct comparison of mononucleated and binucleated cardiomyocytes reveals molecular mechanisms underlying distinct proliferative competencies
The mammalian heart is incapable of regenerating a sufficient number of cardiomyocytes to ameliorate...
GSE140200: Effects of TRIM59 on Raw 264.7 macrophage gene expression
Macrophages have many functions, such as acting as phagocytic pathogens, antigen presentation and pl...
GSE129338: Cdk8 is required for establishment of chromatin marks and gene repression by Xist and mouse embryonic lineage development
We previously reported the cyclin dependent kinase Cdk8 as a putative silencing factor for Xist. Her...
GSE130697: Tumor Repopulating Cell Transcriptome reveals Specific Cell Surface Biomarkers and Signaling Pathways
Cancer metastasis is the most deadly stage in cancer progression. Despite significant efforts over t...
GSE129451: Pathologically distinct fibroblast subsets drive inflammation and tissue damage in arthritis
The identification of lymphocyte subsets with non-overlapping effector functions has been pivotal to...
GSE146135: Impact of TNF receptor superfamily member costimulation on the transcriptome of in vitro CD3/CD28 activated mouse Tregs
Activated Foxp3+ regulatory T cells (Tregs) express several TNF receptor superfamily (TNFRSF) member...
GSE140881: scRNAseq of PBMCs from idiopathic multicentric Castleman Disease (iMCD) flare and remission
We performed scRNAseq of PBMCs from three idiopathic multicentric Castleman Disease (iMCD) patients ...
GSE148344: EXP. 229_AC_RNAseq data of human cancer cell lines 94T778, SKBR3, AU565, SKMEL28 and A375 exposed to the selective MTOR inhibitor torkinib (PP242, Selleckchem, TX, USA) for 72 hours.
Drug concentrations were selected to halt cell cycle progression without affecting cell viability: 9...
GSE140286: Neuronal expression of Alzheimer's disease-associated FAD mouse genotype at 3/6/12 months
Neuronal expression of Alzheimer's disease-associated FAD mouse genotype at 3/6/12 months. SOURCE: T...