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Sequencing-based assays (Page 80)
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GSE123541: Genome-wide RNA-seq and ATAC-seq analysis of an in vivo human immune response to acute Zika virus infection
A longitudinal systems immunologic investigation of acute Zika virus infection in an individual infe...
GSE125211: RNA-sequencing analysis of murine Hematopoietic Stem Cells treated with Nicotinamide Riboside
LT-HSC and ST-HSCs were FACS sorted (>10^4cells per sample), cultured for two days in presence or ab...
GSE124322: Epigenetic regulation of tumor-associated myeloid cell activity by CBP/EP300 bromodomain [RNA-seq]
CBP bromodomain inhibitor effects on mouse MDSCs sorted out of MDA-MB-231.X1.1 xenograft SOURCE: Suc...
GSE133740: NRF2 loss recapitulates heritable impacts of paternal cigarette smoke exposure (RNA-seq)
There is growing evidence that paternal pre-conception cigarette smoke (CS) exposure is associated w...
GSE119011: Rbpj expression in regulatory T cells is critical for restraining TH2 responses [spleen RbpjKO and RbpjWT RNA-seq]
The transcriptional regulator Rbpj is involved in T-helper (TH) subset polarization, but its functio...
GSE122624: RORt inhibition selectively targets IL-17 producing human iNKT and -T cells enriched in Spondyloarthritis while preserving IL-22 responses
Dysregulated IL-23/IL-17 responses have been linked to psoriatic arthritis and other forms of spondy...
GSE114078: Transcriptome profiling of blood leukocytes from FtH LysM-/- and FtH fl/fl mice following sham or CLP surgery
Despite the prevalence and recognition of its detrimental impact, clinical complications of sepsis r...
GSE126134: Effect of Arg2 overexpression on murine liver gene expression profiles
We demonstrate the effects of Arg2 overexpression on murine liver gene expression by high-throughput...
GSE123596: Collateral DNA damage and NAD+ dependence caused by reactive oxygen species signaling in inflammatory macrophages
Adoption of Warburg metabolism is critical for macrophage activation in response to lipopolysacchari...
GSE135874: RNA transcripts from WT or Bmal1-deficient blood-brain barrier throughout a 24 hr period
The blood-brain barrier (BBB) is critical for neural function as it restricts effects of peripheral ...
GSE119127: Expression changes in mouse oligodendrocytes after deletion of the Ep400 chromatin remodeler
To address the role of INO80/SWR-type remodeling complexes, we deleted Ep400 at defined times of mou...
GSE128140: Gene expression in retinal cells from wildtype H9 human embryonic stem cells, PAX6 KO and PAX6D KO cell lines
PAX6 is essential for eye and forebrain development but how PAX6 instructs retinal versus neuroectod...
GSE126145: RNA-sequencing analysis to investigate genes regulated by CASZ1 in SMS-CTR cells
In this study we identified genes regulated by CASZ1b in SMS-CTR cells SOURCE: Jack Shern (john.sher...
GSE133763: CHCHD10 gene KO effect in iPSC drived motor neurons
We investigate the transcriptional changes caused by the knock-out of neuropathy linked gene CHCHD10...
GSE123898: Global host gene expression changes in KSHV+ PEL cells upon KSHV reactivation
Kaposi's sarcoma-associated herpesvirus (KSHV) is a human oncogenic virus, which maintains the persi...
GSE131169: Transcriptomic profiling of functional brown adipocytes derived from human pluripotent stem cells
Brown adipocytes (BAs) are a potential therapeutic cell source for the treatment of metabolic diseas...
GSE125749: Whole transcriptome sequencing of mESCs
Investigation of the ability of WT or mutant hPRDM15 to restore the transcriptional changes induced...
GSE126091: The effect of anthelmintic drugs on human leukocyte gene expression in vitro
Ivermectin and Diethylcarbamizine (DEC) are used in the elimination programs for lymphatic filariasi...
GSE124825: First global gene expression profile analysis of the intestinal stem cell (ISC) niche of SAMP/YitFc (SAMP) mice
High-throughput RNA-seq approach was used to profile transcriptional ISC niche responses in SAMP mic...
GSE123899: Parallel Bimodal Single-cell Sequencing of Transcriptome and Chromatin Accessibility (Human single cell RNA-seq blood)
We report a new technology for the parallel bimodal analysis of RNA-seq and ATAC-seq within a single...
GSE126370: Phosphorylation of TET2 by AMPK is indispensable in myogenic differentiation [RNA-seq]
TET-mediated oxidation of 5-mC participates in both passive and active DNA demethylation, which exer...
GSE125772: ELF4 is a target of miR-124 and promotes neuroblastoma proliferation and undifferentiated state
We performed RNA-seq to identify the transcriptional targets of ELF4 in BE-(2)-C neuroblastoma cells...
GSE124733: Quantitative Analysis of negative control and overexpression-TRIB1 in PC3 and DU145 Transcriptomes
The goals of this study is to find effect of overexpression-TRIB1 to prostate cancer cell (PC3 and D...
GSE123902: The single cell transcriptional landscape of human lung adenocarcinoma (primary tumours and metastases)
By transcriptionally profiling single cells from patients spanning different stages of lung adenocar...
GSE114921: Amphiregulin-producing pathogenic memory T helper-2 cells instruct eosinophils to secrete Osteopontin and facilitate airway fibrosis
Memory helper T cells provide long-lasting host defeMemory helper T cells provide long-lasting host ...
GSE125930: Transcriptional profile of LPS-stimulated murine macrophages treated with bacterially derived fatty acid
We used RNA-seq to profile the effect of a bacterially derived fatty on LPS-stimulated murine macrop...
GSE126144: RNA-sequencing analysis to investigate genes regulated by CASZ1 in C2C12 cells
In this study we identified genes regulated by CASZ1b in C2C12 cells SOURCE: Jack Shern (john.shern@...
GSE131218: RNA sequencing in human GBM stem cells with Myc knockdown and PARP inhibitor treatment
This experiment is to examine the effect of PARP inhibitor and Myc shRNA knockdown on transcriptome ...
GSE123836: Myf6/MRF4 Mediated Myokine Signaling is Required for the Maintenance of the Adult Skeletal Muscle Stem Cell Pool
In metazoans, skeletal muscle evolved to contract and to produce force. Recent experimental evidence...
GSE123501: Retinoic acid receptor alpha represses a Th9 transcriptional and epigenomic program to reduce allergic pathology
T helper (Th) differentiation is regulated by diverse inputs including the Vitamin A metabolite reti...
GSE122597: Immunological Genome Project ULI Deep RNA-seq data
Raw files corresponding to five immunocyte populations deep sequenced using ImmGen's standard ultra-...
GSE122741: The effects of Mkp-1 knockout and systemic E. coli infection on the transcriptome of the liver
Previously, I have found that Mkp-1 knockout exacerbates inflammation, perturbs lipid metabolism, in...
GSE121244: Tbx3 governs a transcriptional program to maintain atrioventricular conduction system form and function [RNA-Seq]
Rationale: The atrioventricular conduction system controls ventricular activation and is delineated ...
GSE139948: Impact of metformin treatment on CD8 in non and BCG-vaccinated mice
The aim is to identify important metabolic and immune signaling pathways in memory CD8 T cells regul...
GSE124077: STAT4 activation by leukemia inhibitory factor confers a therapeutic effect on intestinal inflammation [RNA-Seq]
We report that microbiota dysregulation promotes LIF secretion by intestinal epithelial cells (IECs)...
GSE124381: Innate-like activation of mucosal-associated invariant T cells in mycobacterial infection
Gene expression of Va7.2+CD161+CD4-CD8+MAIT cells from two subsets (CD69+CD26++ and CD69-CD26+/-). S...
GSE124404: Blood RNA-seq of mice after influenza infection
Many previous attempts to derive survival models in whole blood transcriptomics data have failed. St...
GSE116613: TBK1 suppresses RIPK1-driven apoptosis and inflammation during development and in aging
Aging is a major risk factor for both genetic and sporadic neurodegenerative disorders. However, it ...
GSE126151 (human): A systematic analysis of nuclear heat-shock protein 90 identifies a metazoan-specific regulatory module
Molecular chaperones such as heat-shock proteins (HSPs) help in protein folding and complex assembly...
GSE126316: RNA-seq profiling of HSC, MPPs and HPC-1s from Phf6-deleted and Phf6-intact mice
The study profiled the effect of Phf6 deletion on gene expression in hematopoietic stem cells (HSCs)...
GSE112947: Gene-by-sex interactions in mitochondrial functions and tissue-specific gene expression in cardio-metabolic traits
We report a multi-omic study of sex differences and gene-by-sex interactions across a panel of 100 i...
GSE128135: RNA is essential for PRC2 chromatin occupancy and function in human pluripotent stem cells
Many chromatin-binding proteins and protein complexes that regulate transcription also bind RNA. One...
GSE132654: Dissecting the regulatory strategies of NFkB RelA target genes in the inflammatory response reveals differential transactivation logics [MEFs_2]
NFkB RelA is the potent transcriptional activator of inflammatory response genes. We stringently def...
GSE122550: SHANK2 mutations associated with autism spectrum disorder cause hyperconnectivity of human neurons
Heterozygous loss-of-function mutations in the synaptic scaffolding gene SHANK2 are strongly associa...
GSE143858: Next Generation Sequencing of first trimester human cytotrophoblasts expressing a constitutively active mutant (5SA) of the transcriptional co-activator YAP.
Aim of the study was to elucidate YAP-regulated trophoblast-specific genes by analyzing differential...
GSE121478: Single-cell RNA-sequencing of murine melanoma infiltrating immune cells in wild-type and miR-155 T cell conditional knockout mice
miR-155 has recently emerged as an important promoter of antitumor immunity through its functions in...
GSE126356: Inguinal LN CD11c SubQ KPC
Bulk RNA sequencing of sorted inguinal LN CD11c+ cells from healthy mice and mice subcutaneously imp...
GSE124397: SRSF1 role in cellular gene expression and splicing
SRSF1 is an abundant RNA-binding protein with functions in mRNA splicing, stability, translation and...
GSE115340: Promoter-enhancer communication occurs primarily within Gene Unit Sub-TADs (GUSTs)
The mammalian genome is sequentially partitioned from chromosomes into looped chromatin regions term...
GSE126365: ZRANB2 and SYF2 mediated splicing programs converging on ECT2 are involved in breast cancer cell resistance to doxorubicin
We explored the regulation of alternative splicing in a cell model of breast cancer resistance to do...
GSE135639: Pro-opiomelanocortin (POMC) neuron translatome signatures underlying obesogenic gestational malprogramming
Maternal unbalanced nutritional habits during embryo development and perinatal stages perturb hypoth...
GSE124073: Histone modifications underlie monocyte dysregulation in Systemic Sclerosis patients, underlining the treatment potential of epigenetic targeting [RNA-seq]
Systemic sclerosis (SSc) is a chronic autoimmune disease that mainly affects the connective tissue. ...
GSE124389: Acne flare-up in treatment process: investigating the difference of gene expression in peripheral blood
Objectives: To identify gene expression changes in acne flare-up patients, thereby exploring the mec...
GSE122509: Dynamic molecular monitoring reveals that SWI/SNF mutations mediate resistance to ibrutinib plus venetoclax in mantle cell lymphoma [RNA-Seq]
Ibrutinib plus venetoclax is a highly effective combination in mantle cell lymphoma. However, strate...
GSE115346: T-ALL Leukemia Stem Cell stemness is Epigenetically Controlled by the Master Regulator PU.1 [bulkRNA]
Leukemia stem cells (LSCs) are regarded as the origins and key therapeutic targets of leukemia, but ...
GSE124117: Regulation of cardiac transcription by thyroid hormone and Med13
Purpose: The objective of this study was to determine cardiac transcriptional pathways regulated in ...
GSE123628: RNA-seq of Splenic CD4+ T cells and colon epithelial cells from miR-34a-/- and wildtype mice
miR-34a is a known tumor suppressor that targets cell proliferation and apoptosis genes. In this stu...
GSE141342: Anti-aging effects of Ribes meyeri anthocyanins on adipose-derived stem cells and aged mice
We implemented RNA-seq analyses of blood of 10-11M mice; These mice with the treatment of Naringenin...
GSE133889: H3K79me2 dynamics in medium spiny neurons mediate long-term behavioral and cell type-specific molecular effects of early life stress
Animals susceptible to chronic social defeat stress (CSDS) exhibit depression-related behaviors, and...
GSE126179: Bcor loss perturbs myeloid differentiation and promotes leukaemogenesis [BcorKrasRNA-seq]
Investigation of the transcriptional profile of BcorE9-10KrasG12D myeloid progenitors SOURCE: Madiso...
GSE134322: RNA-Seq analysis of genes differentially regulated in nave Cd4 T cells from wide-type and PIK3CD GOF mice
Objective:mRNA sequencing of sorted naive CD4+ T cells from the spleens of PIK3CD GOF mice and WT li...
GSE112975: ACE-inhibition induces a cardioprotective transcriptional response in the metabolic syndrome heart.
The goal of the current study was to characterize the cardiac transcriptional signature of the metab...
GSE128321: Distinct requirements of CHD4 during B cell development and antibody response
Immunoglobulin heavy chain (Igh) class switch recombination (CSR) requires B cell proliferation, ger...
GSE129851: REPROGRAMMING IDENTIFIES FUNCTIONALLY DISTINCT STAGES OF CLONAL EVOLUTION IN MYELODYSPLASTIC SYNDROMES
As part of this study, we isolated induced pluripotent stem cells (iPSCs) from a patient with TP53-m...
GSE130745: Next Generation Sequencing Analysis of livers from 2-month WT/12-month WT and 2-month HKO/12-month nontumor/12month- tumor.
SRSF2 flanked with flox was specifically depleted in the livers by Alb-Cre(HKO),and took the intact ...
GSE119466: LaminA/C regulates epigenetic and chromatin architecture changes upon aging of hematopoietic stem cells
The decline of hematopoietic stem cell (HSC) function upon aging contributes to the senescent immune...
GSE138537: Transcriptional analysis of tendons from mice
We report RNA sequencing data from the Achilles, patellar, supraspinatus, and forepaw flexor tendons...
GSE121279: RNA-seq and ChIP-seq to study how transcription factor Foxp1 regulates Foxp3 binding to chromatin and coordinates regulatory T cell function
Regulatory T (Treg) cells, whose differentiation and function are controlled by transcription factor...
GSE125001: Gene expression signatures of chemotherapy-induced neuropathy induced by vincristine
Vincristine, oxaliplatin, and cisplatin are commonly prescribed chemotherapeutic agents for the trea...
GSE116630: Dynamic Patterns of Threat-associated Gene Expression in the Amygdala and Blood
Purpose: Identification the biological response to fear and stress in both brain and blood is vital ...
GSE136210: Analysis of anti-CD3e-induced transcriptional changes in WNK1-deficient thymocytes
RNAseq was used to analyse transcriptional changes occuring in WNK1-expressing or WNK1-deficient DN3...
GSE115765: Deciphering the regulatory landscape of fetal and adult gd T-cell development at single-cell resolution
Gamma delta T (gdT) cells with distinct properties develop in the embryonic and adult thymus and hav...
GSE115906: Organ-specific tissue-resident macrophages dynamics during blood stage malaria
Blood-stage malaria initiates both innate and adaptive immune responses, inclusive a strong activati...
GSE126183: Bcor loss perturbs myeloid differentiation and promotes leukaemogenesis [TransplantRNA-SEQ]
Investigation of the transcriptional consequences of Bcor loss in bone marrow transplant SOURCE: Mad...
GSE124932: Effect of SARM1 deficiency on mouse brain transcriptome with or without prion infection
To study the effect of SARM1 deficiency on brain transcriptome, we performed RNAsequencing of the br...
GSE128110: Transcription profile analysis of wild type and Irf9-/- mouse embryonic fibroblasts (MEF) in response to type I interferons
Host defense by the innate immune system requires the establishment of antimicrobial states allowing...
GSE137986: High spatial resolution multi-omics atlas sequencing of mouse embryos
Microfluidic deterministic barcoding of mRNAs and proteins in tissue slides followed by high through...
GSE123636: An RNA binding region in CTCF regulates chromatin looping and CTCF nuclear organization
The study investigates CTCF/cohesin binding and chromatin looping by ChIP-seq and Micro-C. By ChIP-s...
GSE136655: NON-CELL AUTONOMOUS FUNCTIONS OF SPHINGOSINE KINASE 2 AND TP53 IN ANTI-TUMOR IMMUNITY
We compared the global transcriptomes of wild type and SphK2 null fibroblasts by RNA-seq as a first ...
GSE125047: Nuclear control of mitochondrial function mediated by Zbtb11
Zbtb11 is an uncharacterised transcription factor that is conserved in vertebrates. Mutations in its...
GSE114599: DNA (de)methylation in embryonic stem cells controls CTCF-dependent chromatin boundaries
Coordinated changes of DNA (de)methylation, nucleosome positioning and chromatin binding of the arch...
GSE115104: Light can synchronise peripheral clocks autonomously from each other
Organisms have adapted to the changing environmental conditions within the 24h cycle of the day by t...
GSE126198: Integrative vascular endothelial cell genomics identify AIDA as a coronary artery disease candidate gene (RNAseq)
Genome-wide association studies (GWAS) have identified 100s of loci associated with coronary artery ...
GSE123489: RNA-seq Analysis in 4T07 Control (4T07-CTL) and Six2 Overexpression (4T07-Six2) cells
Six2 may play a role in mediating stemness characteristics during tumor progression as during develo...
GSE131905: T Cells Control Chemokine Secretion by Keratinocytes
By co-culturing murine keratinocytes with splenic T cells we show here that T cells affect the synth...
GSE113262: Single cell RNAseq of Wild Type and IL27ra KO Tumor infiltrating lymphocytes isolated from B16F10 melanoma batch 1
Expression of co-inhibitory receptors, such as CTLA-4 and PD-1, on effector T cells is a key mechani...
GSE126690: Macrophage ATP citrate lyase deficiency stabilizes atherosclerotic plaques
Atherosclerosis is a lipid-driven chronic inflammatory disorder of the arteries in which macrophages...
GSE113351: CNS-draining lymphatics play a key role in age-dependent cognitive decline and Alzheimers disease pathology [3 of 3]
Aging is a major risk factor for many neurological pathologies, including Alzheimers disease (AD). H...
GSE118802: The genome-wide enhancer profiling of breast cancer in the MMTV-PyVT mice [RNA-seq]
Activation of transcription enhancers, especially super enhancers, is one of the important epigeneti...
GSE135525: Genome-wide analysis reveals a switch in the translational program upon oocyte meiotic resumption
Examination of ribosome-bound mRNA at five timepoints (in duplicates) during oocyte meiosis (prophas...
GSE114750: Comparison of transcriptional profiles of cultured intestinal ILC3s to freshly isolated splenic and intestinal ILC3s
ILC3s from the spleen (SP) and small intestine (SI) have been shown to be phenotypically and functio...
GSE116571: Metabolic Alterations in JAK2 Mutant Hematopoietic Cells Represent Therapeutic Vulnerabilities for Myeloproliferative Neoplasms
Increased energy requirement and metabolic reprograming is a hallmark of cancer cells. We found that...
GSE126165: Genome-wide analysis of gene expression in wild-type and KMT2D-deficient HT22 cells
We conducted genome wide transcription profiling by RNA-seq in a mouse hippocampal cell line (HT22),...
GSE113430: KLF4 binding is involved in the organization and regulation of 3D enhancer networks during acquisition and maintenance of pluripotency [RNA-seq]
Summary: Cell fate transitions are accompanied by global transcriptional, epigenetic and topological...
GSE124839: PFA Ependymoma-associated protein EZHIP inhibits PRC2 through a H3 K27M like mechanism (RNA-seq)
To understand the EZHIP-mediated transcriptional profile in mouse embryonic fibroblasts SOURCE: Pete...
GSE116220: The TPL-2 ERK1/2 signalling pathway inhibits interferon beta expression in macrophages via TCF-dependent Fos transcription
Studies in mice have indicated that TPL2 kinase plays important roles in immune responses to pathoge...
GSE119775: Defective mitochondrial cardiolipin remodeling dampens HIF-1a expression in hypoxia
Mitochondria fulfill vital metabolic functions and act as crucial cellular signaling hubs integratin...
GSE126771: Overexpression of the non-muscle RBFOX2 isoform triggers cardiac conduction defects in myotonic dystrophy
Myotonic dystrophy type 1 (DM1) is a multisystemic genetic disorder caused by a CTG trinucleotide r...
GSE116628: RNA-seq of Wnt7b overexpressing bone
We report the application of RNA sequencing technology for high-throughput profiling of gene express...
GSE126858: High-Fructose Corn Syrup Enhances Intestinal Tumor Growth in Mice
Excessive consumption of beverages sweetened with high-fructose corn syrup (HFCS) is associated with...