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Sequencing-based assays page 19
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GSE104227: Epigenomes and Transcriptomes of human macrophages after ex vivo exposure to mevalonate
Innate immune memory, also refered to as trained immunity (TRIM) is the phenomenon whereby innate im...
GSE106436: Hemophilia mice treated with antisense oligonucleotides targeting either Upf1 or Upf3b
Hemophilia mice were treated for one month with ASOs targeting either Upf1 or Upf3b. The liver RNAs ...
GSE108242: RNA-seq profiling of mouse embryonic fibroblasts from Kat6a knockout and wildtype mice
Acetylation of histones by lysine acetyltransferases (KATs) is essential for transcriptional regulat...
GSE84548: Loss of Uhrf1 in neural stem cells leads to activation of retroviral elements and delayed neurodegeneration [P5]
In order to understand if early epigenetic mechanisms instruct the long-term behaviour of neural ste...
GSE93526: Gene signature profiles in respiratory epithelium infected with nontuberculous mycobacteria
The incidence of pulmonary nontuberculous mycobacterial (PNTM) disease is increasing, but host susce...
GSE92852: Generation and functional characterization of MDSC-like cells
Myeloid derived suppressor cells (MDSC) are critical in regulating immune responses by suppressing a...
GSE96035: Class I histone deacetylases HDAC1, 2 and 3 are histone decrotonylases
We characterize histone crotonylation in intestinal epithelium-derived cells through Mass spectromet...
GSE106927: Transcriptional profiling of macrophages derived from injured nerves at 3 and 8 days post-injury
Pro-regenerative macrophages are well known for their role in promoting tissue repair, however in ne...
GSE129518: Circadian gene expression in mouse gastrocnemius muscle after deletion of SIRT1 in SF1 neurons
Loss of synchrony between geophysical time and insulin action predisposes to metabolic diseases. Ye...
GSE86209: Hhex regulates HSC self-renewal and stress hematopoiesis via repression of Cdkn2a
The Hematopoietically-expressed homeobox transcription factor (Hhex) is important for the maturation...
GSE104940: Cytoplasmic Miz1 Suppresses TNF--Induced NF-B Activation and Hepatocellular Carcinoma Progression via the Interaction with Metadherin
Previous studies have revealed that nuclear Miz1 is implicated in the regulation of several cancers ...
GSE92842: Single cell mRNAseq of Olfactory Epithelium and Neurog1-eGFP+ progenitors
Single cell mRNAseq maps a global landscape of transcriptomes in uninjured tissue, showing clear tra...
GSE129999: RNA-sequencing of microglia from IL-5 or PBS treated aged (20mos) mice
The role of IL-5 in brain neuroimmunity remains unknown. We investigated the role of IL-5 in cogniti...
GSE93131: The transcription factor Sox2 regulates AID expression in class switched B cells
The transcription factor Sox2 is expressed in activated B cells following the initiation of immunogl...
GSE98725: Transcriptional Regulation by NFATc1 in CD8+ T cells [RNA-seq]
Cytotoxic T Lymphocytes (CTLs) are effector CD8+T cells that eradicate infected and malignant cells ...
GSE109434: Knockdown of Tis7 in mouse erythroblasts
DNA-binding factor Tis7 (Ifrd1) shows increased ribosome recruitment during eIF2 phosphorylation dur...
GSE94800: Quantification of differential gene expression by multiplexed targeted resequencing of cDNA
We present an approach for quantification of differential mRNA expression by targeted resequencing o...
GSE95685: RNA-seq analysis of mouse liver transcriptome following exposure to TCPOBOP or PCN
Changes in gene expression were assayed in mouse liver nuclear RNA following a single injection of t...
GSE93629: Synectin Promotes Fibrogenesis by Regulating PDGFR Isoforms Through Distinct Mechanisms
The scaffold protein synectin plays a critical role in the trafficking and regulation of membrane re...
GSE137999: RNA-seq of mouse small intestine samples from different Fecal Microbiota Transplantation treatment groups
The aim of this project was to explore the role of gut microbiota in the development of small intest...
GSE109257: Comparison of expression profiles of SCD::Keap1F/F and SCD::Keap1F/F::Tie1-Cre mouse pulmonary primary endothelial cells(MPPCECs)
This experiment evaluate the expression level of Nrf2 genes transcript in mouse primary endothelial ...
GSE83876: Transcriptome comparison of oocytes treated with RNAi against Btg4 or with control siRNAs
The comparison of trancriptomes was part of the study by Pasternak et al. The goal was to check if B...
GSE96950: Cell type-specific alternative splicing during mammalian neuronal differentiation
Alternative precursor-mRNA splicing (AS) is a key regulation of gene expression and protein diversit...
GSE120946: Bcl11b prevents catastrophic autoimmunity by controlling multiple aspects of regulatory T-cell gene expression program [RNA-Seq]
In order to acquire in depth understanding of Treg specific molecular functions of Bcl11b, we perfor...
GSE99468: RNA-Seq profiling of day 7 and day 18 kidney organoids differentiated in two batches
The kidney differentiation protocol takes induced pluripotent stem cells through to kidney organoid ...
GSE104089: Cell type-specific dysregulation of ERK signaling impairs synaptic plasticity and memory in a mouse model of Noonan syndrome
We report transcriptome data from excitatory and inhibitory neurons of mouse brain. SOURCE: Jung-Woo...
GSE121184: chrRNA-seq in wild-type, SmcHD1 MommeD1mut and somKO MEFs
In this study we investigate the role of the non-canonical SMC family protein, SmcHD1in the X inacti...
GSE119551: Effects of transcription factor CEBPA knockdown on vitamin D target gene regulation in THP-1 cells
Three independent repeats of siRNA knockdown of CEBPA, followed by 24h vitamin D treatment, RNA extr...
GSE107626: RNA-seq expression profiling of Suz12-deleted or wild-type organoids derived from basal or luminal mouse mammary epithelial cells.
Total RNA was extracted from organoids grown from single sorted luminal or basal populations from th...
GSE106116: CD90 Identifies Adventitial Mesenchymal Progenitor Cells in Adult Humans
RNAseq of CD90+ cells obtained fresh from human vessels (healthy aorta, diseased aorta and internal ...
GSE100183: MYCL and EP400 are required for Max and MCPyV mediated gene activation
To determine if MYCL or EP400 knockdown would affect Max target genes in Merkel cell carcinoma cell ...
GSE121002: Single-cell gene expression of anti-viral WT and Thpok-deficient effector and memory T cells
Single-cell gene expression of effector and memory CD4+ and CD8+ T cells from WT or Thppok-deficien...
GSE99372: Erythropoietin Signaling Regulates Key Epigenetic and Transcription Networks in Fetal Neural Progenitor Cells
Erythropoietin (EPO) and its receptor are highly expressed in the developing nervous system, and is ...
GSE100261: Transcriptional impact of MTHFD2 in Human Aortic Endothelial Cells
We performed transcriptome analysis of Human Aortic Endothelial Cells after siRNA mediated knockdown...
GSE110972: H3.3K4M targets MLL3/MLL4 to prevent enhancer activation in adipogenesis
Enhancers play a key role in regulating cell type-specific gene expression and are marked by histone...
GSE104756: Differential gene expression tools exhibit substandard performance for long non-coding RNA-sequencing data
Paired End PolyA-+ RNA-sequencing of NGP cells with and without NGP treatment in 10 replicates. SOUR...
GSE106699: RNA sequencing of 13 T-cell acute lymphoblastic leukemia patients (5 TCRAD-MYC translocated T-ALL_8TAL1-LMO2 T-ALL)
RNA sequencing analysis revealed a different expression profile between two different T-ALL subgroup...
GSE107334: Insulin receptor associates with promoters genome-wide and regulates gene expression [RNA-seq]
RNA-seq analysis identifies transcripts regulated by insulin treatment. SOURCE: John,G,Flanagan (fla...
GSE93107: Transcription factor Hoxb5 reprograms B cells into functional T lymphocytes [RNA-Seq]
Natural hematopoietic stem cells are currently the only cell resource to generate entire T lymphopoi...
GSE104282: Epigenomes and Transcriptomes of human monocytes from Hyper IgD Syndrome (HIDS) patients
Innate immune memory, also refered to as trained immunity (TRIM) is the phenomenon whereby innate im...
GSE94518: Hypertonic saline attenuates the cytokine-induced pro-inflammatory signature in primary human lung epithelia
HTS inhibits inflammation of lung epithelium SOURCE: Kenneth,L,Jones (Kenneth.L.Jones@ucdenver.edu) ...
GSE109530: HDAC3 restrains cytokine signaling during thymocyte development for the generation of CD4 T cells (RNA-Seq)
CD4 and CD8 T cells are vital components of the immune system. According to the kinetic signaling m...
GSE94892: Transcriptome analysis for identification of novel biomarker for disease progression in Dengue patients
To study the early transcriptional signature in the peripheral blood mononuclear cells (PBMCs) in a ...
GSE100327: RNA-sequencing profiles of five different pancreas cancer cell lines that were engineered to express a form of the basic helix-loop-helix transcription factor, E47, that localizes to the nucleus in response to tamoxifen.
E47 had been shown previously to inhibit cell cycle progression in pancreas cancer cell lines. This ...
GSE107693: Comparing oestrogen-responsive genes in endometrial and breast cancer cell lines
Up to 80% of endometrial and breast cancers express the oestrogen receptor ERa. Unlike breast cancer...
GSE100215: Functional co-operativity of long-noncoding RNAs at the neuroblastoma susceptibility locus 6p22.3 controls disease progression via USP36-CHD7-SOX9 gene regulatory axis.
We report 6p22 locus lncRNAs, which were identified as differentially expressed between high and non...
GSE117631: Gene expression profile of DLBCL cells emerged in Cg1-Cre Spi1 KO mice
We performed RNA-seq analysis and compared the differences in gene expression between tumor cells fr...
GSE112469: Impact of ERG and PTEN loss on RNA expression
The current study defines the how ERG, PTEN, and AR inteact to regulate the transciptome in establis...
GSE86301: The Cdc42/Rac1 regulator CdGAP is a novel E-cadherin transcriptional co-repressor with Zeb2 in breast cancer
The loss of E-cadherin causes dysfunction of the cell-cell junction machinery, which is an initial s...
GSE105128: KAP1 regulates Treg function and proliferation.
KAP1 is a partner of Foxp3 in Tregs. Since Treg specific KAP1 deficient mice develop autoimmune dise...
GSE109661: Gata4-dependent differentiation of c-Kit+ derived endothelial cells underlies deceptive cardiomyocyte regeneration in the heart
Overall goal: To elucidate the endothelial-specific role of Gata4 signaling in endothelial maturatio...
GSE98242: The AP-1 Transcription Factor JunB Is Required for Th17 Cell Differentiation
Interleukin (IL)-17-producing T helper (Th17) cells are crucial for host defense against extracellul...
GSE101432: Comprehensive transcriptome analysis in human liver
The complexity of transcriptome in human liver has not been clarified quite clearly so far. Here we ...
GSE107732: RNAseq data from FACS-sorted CD45hi cells from mouse brain from control mice (uninjected) or LPS-injected mice in the context of A20 knockout
Using RNAseq, we compared the mRNA profiles of CD45hi cells in the brain of wild type or myeloid-spe...
GSE90878: An erythroid-specific enhancer of ATP2B4 mediates red blood cell hydration and malaria susceptibility [RNA-seq]
Few genotype-phenotype associations identified by genome-wide association studies (GWAS) have been d...
GSE109376: Cardiac fibroblasts behave differently to isoproterenol-induced injury based on their genetic variability
The goal of this study is to characterize molecular mechanisms that regulate cardiac fibrosis; This ...
GSE111564: Gene Expression in COP1-ETV1-ETV5-cJun deficient mouse brain
Total RNA was extracted from E18.5 brains with the olfactory bulbs removed using the MirVana miRNA i...
GSE107411: Functional Genomic Analyses of Hep-G2 Cell Line after FTO knockdown
To explore the molecular mechanism underlying glucose regulation by hepatic FTO, we used the human h...
GSE101504: Profiling of untreated and residual murine BCC after Hedgehog Pathway Inhibitor (HPI) treatment
RNA was isolated from laser capture micro-dissected (LCM) tumour nests from fresh frozen skin of K14...
GSE106225: Multi-axial self-organisation properties of mouse embryonic stem cells into gastruloids [bulk]
Gastruloids are small aggregates of murine Embryonic Stem (ES) cells stimulated to undergo gastrulat...
GSE109722: Marfan syndrome in mice
Comparison of whole genome expression profiles to characterize gene expression during development of...
GSE90906: Transcriptional repression by FACT is linked to regulation of chromatin accessibility at the promoter of ES cells
The conserved and essential histone chaperone FACT (Facilitates Chromatin Transcription) reorganizes...
GSE106851: Landscape of H3K4me3 in human CD19 cells
Chromatin immunoprecipiation of H3K4me3 of isolated B cells from healthy human donors and LCLs and R...
GSE121142: Bcl9 and Pygo synergize downstream of Apc to effect intestinal neoplasia in mouse models recapitulating Familial Adenomatous Polyposis (RNA-Seq)
We assessed differential gene expression using RNAseq in intestinal adenomas between Apc loss-of-fun...
GSE119579: RNA sequencing of Asthmatic Human Airway Smooth Muscle Cells II
The goal of the was to evaluate the mRNA expression profile of asthmatic and non-asthmatic airway sm...
GSE118828: Identification of grade and origin specific cell populations in serous epithelial ovarian cancer by single cell RNA-seq
Here we investigated different cell populations within ovarian cancer using single-cell RNA seq: fou...
GSE107000: RNAseq analysis of ruxolitinib treated breast cancers
We performed RNA sequencing analysis on fresh-frozen biopsies of metastatic triple-negative breast c...
GSE107760: Characterising the key metabolic pathways of the neonatal mouse heart using an untargeted quantitative combinatory -omics approach
The heart of new-born mouse has exceptional capacity to regenerate from myocardial injury. However, ...
GSE95013 (mouse): AICDA-induced epigenetic plasticity accelerates germinal center-derived lymphomagenesis
Epigenetic heterogeneity is emerging as a significant phenotypic feature of tumors. In diffuse large...
GSE106804: Engineered Nanointerfaces for Microfluidic Isolation and Molecular Profiling of Tumor-specific Extracellular Vesicles
Tumor-EVs were captured on a nanostructured interface through immunoaffinity immobilization in a mic...
GSE107746: Transcriptome Landscape of Human Folliculogenesis Reveals Oocytes and Granulosa Cells Interactions
The dynamic transcriptional regulation and interactions of human germlines and surrounding somatic c...
GSE129539: MiR-29 regulates de novo lipogenesis and controls circulating triglyceride levels in a Sirt1-dependent manner
Investigation of the effect of miR-29 on de novo lipogenesis. SOURCE: Praveen SethupathyDr. Sethupat...
GSE96552: Genome-wide profiling of somato-dendritic mRNA distribution in the hippocampus in RNG105/caprin1 conditional knockout (cKO) mice
Background: mRNA localization and translation in neuronal dendrites are the basis for long-term syna...
GSE106178: Stable oxidative cytosine modifications accumulate in cardiac mesenchymal cells from Type2 diabetes patients: rescue by alpha-ketoglutarate and TET-TDG functional reactivation [mouse muscle RNA-seq]
Background: Here, the role of -ketoglutarate (KG) in the epi-metabolic control of DNA demethylation ...
GSE113900: RNA-Sequencing analysis of differential gene transcription profiles induced by the prenatal/maternal broccoli sprout (BSp) diet
Purpose: We tested global gene transcriptome changes by RNA-sequencing analysis in the offspring bre...
GSE134570: Diverse repertoire of human adipocyte subtypes develops from transcriptionally distinct mesenchymal progenitor cells
Single cell sequencing technologies are providing unexpected insights on how seemingly homogenous ce...
GSE110316: Investigation of mRNA expression pattern by over-expression of two CEBPB transcription factor isoforms
The RNA binding protein Lin28b is highly expressed during embryogenesis but its expression declines ...
GSE94155: A next generation sequencing based approach to identify extracellular vesicle mediated mRNA transfers between cells
Purpose: Exosomes and other extracellular vesicles (EVs) have emerged as an important mechanism of c...
GSE99364: Stabilization of c-Myc protein by CAMKII promotes T-cell lymphoma
Although high c-Myc protein expression is observed alongside c-Myc gene amplification in some cancer...
GSE110892: Neural Stem Cell Extracellular Vesicle-Treated Microglia and Transcriptional Response
Extracellular vesicles (EVs) were isolated from primary cultures of neural stem cells (NSCs) and use...
GSE119048: Intrinsic toxicity of LCDD monoclonal Ig free light chain on plasma cells (PC)
We analyzed the transcriptome (RNA-seq) of mouse plasma cells (PC) expressing a human Ig light chain...
GSE106218: Single cell RNA sequencing of multiple myeloma I
To understand molecular events associated with myeloma progression, we applied single-cell RNA seque...
GSE145307: Single cell RNA sequencing analysis of sorted T and B cells following natural primary and secondary DENV infection
Viable T cells (CD3+ CD19-) and B cells (CD3- CD19+) were sorted from PBMC samples obtained from 6 i...
GSE107790: Mononuclear phagocytes locally specify and adapt their phenotype in the inflamed central nervous system, blood monocyte and brain microglia expression data
We introduce an in vivo imaging approach that allows us to temporally and spatially resolve the evol...
GSE103075: Gene expression patterns define the hepatocyte-like cells derived by different strategies [RNA-seq]
We performed genome-wide gene profiling in hiPSC-Hep and hiHep and compared gene expression patterns...
GSE106506: Differential Wnt-mediated Programming and Arrhythmogenesis in Right versus Left Ventricles [wntgof]
Several inherited arrhythmias primarily affect the right ventricle, including Brugada syndrome and a...
GSE107736: Endogenous glucocorticoids suppress spontaneous gastric inflammation and spasmolytic polypeptide expressing metaplasia
Adrenalectomy induced severe eosinophil and macrophage infiltration localized to the gastric corpus ...
GSE104762: Epithelial vimentin plays a functional role in mammary gland development
Primary mammary gland basal epithelial cells from adult vimentin knockout mice and their littermate ...
GSE106467: Low affinity TCRs support regulatory T cell function in autoimmunity
Low affinity Tregs are important for controlling autoimmune diabetes. SOURCE: Maria Bettini (maria.b...
GSE83229: IL-33 and ST2 license beige and brown adipocytes for uncoupled respiration
For placental mammals, the transition from the in utero maternal environment to postnatal life requi...
GSE92872: Pooled CRISPR screening with single-cell transcriptome read-out
We combined CRISPR genome editing with single-cell RNA sequencing to assess complex phenotypes in po...
GSE111558: Methionine supplementation and radiation in mouse jejunum
Methionine supplementation exarcerbates radiation injury in the mouse jejunum SOURCE: Kyle,Ryan,Nave...
GSE113931: High-resolution comparative analysis of great ape genomes
We couple long-read sequence assembly, full-length cDNA sequencing, and a multi-platform scaffolding...
GSE110165: Analysis of changes in Dendritic cell (DC) gene expression upon exposition to T-cell Exosomes.
Bone Marrow derived dendritic cells (BMDC) were cultured for 9 days. BMDC were treated with T cell e...
GSE153935: Spatially discrete signalling niches regulate fibroblast heterogeneity in human lung cancer [single-cell RNA-seq]
Fibroblasts are functionally heterogeneous cells, capable of promoting and suppressing tumour progre...
GSE96555: Coordinated control of mRNA and rRNA processing regulates early mammalian embryogenesis [RNA-Seq]
Stem cells are regulated by transcriptional networks controlling pluripotency and differentiation. H...
GSE112448: Polarized B -cell functions
In this study, we designed an in vitro approach to help us understand how extracellular components p...
GSE93202: Inflammasome-driven catecholamine catabolism in macrophages blunts lipolysis during ageing
We performed whole transcriptome profiling on sorted tissue macrophages from the spleen or from visc...
GSE103863: Metabolic and Transcriptional Alterations in the Early Stages of Cardiac Fuel Switch Hint at Novel mTOR-mediated Regulation of Hypertrophy [RNA-seq]
1. Background- Long-chain acyl-CoA synthetases (ACSL) catalyze the conversion of long-chain fatty ac...
GSE103057 (mouse): BRWD1 orchestrates epigenetic landscape of late B lymphopoiesis
Transcription factor (TF) networks determine cell fate in hematopoiesis. However, how TFs cooperate ...