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Sequencing-based assays (Page 118)
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GSE145444: COP1 depletion and LPS treatment of microglia in vitro
The realization in the last decade that dysregulated microglia are intimately involved in Alzheimers...
GSE145446: Long term effects of COP1 deletion in microglia in vivo
The realization in the last decade that dysregulated microglia are intimately involved in Alzheimers...
GSE153764: ATF4 regulates MYB to increase g-globin in response to loss of -globin [RNA-seq]
Boontanrart et al model the cellular stress that occurs upon reduction in -globin in human erythroid...
GSE154541: RNA seq analysis of Nfe2 expressing 4T1 and TS/A cells
We founed enhanced Nfe2 mRNA expression in bone tropic mouse breast cancer cell lines, 4T1.3, grown ...
GSE146476: Intestinal region-specific Wnt signalling profiles reveal interrelation between cell identity and oncogenic pathway activity in cancer development
We use a 3D in vitro organoid model to study the early phase of colorectal cancer development. In re...
GSE154843: Stromal upregulation of SOX2 promotes tumorigenesis through the generation of a SFRP1/2-expressing cancer-associated fibroblast population [RNA-seq]
Although how CAFs impact the tumor epithelium is being progressively unveiled, transcriptional proce...
GSE156387: KDM5A and PHF2 positively control expression of pro-metastatic genes repressed by EWS/Fli1, and promote growth and metastatic properties in Ewing Sarcoma
The goal of this study was to understand the role of the chromatin factors KDM5A and PHF2 in Ewing S...
GSE153454: Transcriptome Analyses in BV2 microglial cells following treatment with amino-terminal fragments of apolipoprotein E
This study assessed the effects of amino terminal ApoE4 fragments (residues 1-151) on modulating the...
GSE147495: IL-33-PU.1 transcriptome reprogramming drives functional state transition and clearance activity of microglia in Alzheimers disease
Impairment of microglial clearance activity contributes to beta-amyloid (A) pathology in Alzheimer d...
GSE154406: Autonomous neutrophil ageing in the lung governed by the pulmonary microbiome
We used cellular indexing of transcriptomes and epitopes-based single cell RNA sequencing (CITE-scRN...
GSE153831: BRAFV600E or mutant MAP2K1 human CD34+ cells establish Langerhans cell-like histiocytosis in immunodeficient mice
We describe a xenograft model for human LCH-like disease in which we transduced human Cord Blood CD3...
GSE154556: Epigenetic modification of the COX-2/PGE2 pathway modulates macrophage phenotype and cell-targeted manipulation improves diabetic tissue repair
RNA-sequencing techniques to profile the transcriptomes of lesional skin of diabetic patients SOURCE...
GSE146928: Early fate defines microglia and non-parenchymal brain macrophage development
Central nervous system (CNS) macrophages comprise parenchymal microglia and border-associated macrop...
GSE151071: Control of gene expression mRNAN6-methyladenosine in pro-B cells
N6-methyladenosine (m6A) is the most abundant internal modification in eukaryotic messenger RNA (mRN...
GSE151225: CRISPR-GEMM pooled mutagenic screening identifies KMT2D as a major modulator of immune checkpoint blockade (RNA-Seq)
Immune checkpoint blockade (ICB) has shown remarkable clinical efficacy across multiple cancer types...
GSE151776: Microphysiological System Modeling of Ochratoxin A-Associated Nephrotoxicity
Ochratoxin A (OTA) is one of the most abundant mycotoxin contaminants in food stuffs and possesses c...
GSE147295: BMP signaling: at the gate between activated melanocyte stem cells and differentiation [RNA-Seq]
Adult tissue stem cells protect their long-term potential by exerting precise control over their tra...
GSE146522: To determine the effects of non-cholesterol based sterol enriched diets on liver gene expression
Xenosterol accumulation in mice deficient in sterolin function leads to significant toxicity, with i...
GSE153807: Single nucleus RNA-Seq is not suitable for detection of microglial activation genes in humans
Single nucleus RNA-Seq (snRNA-Seq) is used as an alternative to single cell RNA-Seq, as it allows tr...
GSE154410: Sperm long RNA sequencing 14 days after dexamethasone injection
This study investigates the impact of Dexamethasone on sperm RNA in mice. Using RNA sequencing we fi...
GSE156147: Classifying polycyclic aromatic hydrocarbons by carcinogenic potency using in vitro biosignatures
In this study, we compare genomic signature safter treatment ofprimary human bronchial epithelial c...
GSE146523: The effects of liver specific deletion of Dhcr7 on gene expression
Smith-Lemli-Opitz Syndrome (SLOS) is a developmental disorder caused by autosomal recessive mutation...
GSE153873: An integrated multi-omics approach identifies epigenetic drivers associated with Alzheimers disease [RNA-Seq]
We report the ERCC spike-in controlled RNA-seq in human hippocampus subject to normal aging and Alzh...
GSE157433: RNA-seq of Runx3 cKO SFZ/DZ chondrocytes.
Purpose: To demonstrate Runx3's association with organizing the extracellular matrix in SFZ/DZ chond...
GSE150289: Single-cell analysis uncovers inter- and intra-organ fibroblast heterogeneity and provides criteria for fibroblast identification and discrimination from vascular mural cells [bladder]
Many important cell types in adult vertebrates have a mesenchymal origin, including fibroblasts and ...
GSE153138: Next Generation Sequencing Facilitates Quantitative Analysis of Wild Type and Mettl5-/- brain Transcriptomes
Purpose: Next-generation sequencing (NGS) has revolutionized systems-based analysis of cellular path...
GSE153822: Copa mutation activates STING and perturbs thymocyte development by increasing type I interferons in the thymus.
Pathogenic COPA variants cause a Mendelian syndrome of immune dysregulation with elevated type I int...
GSE146405: RNA-Seq Analysis of Wild Type and Scn5a/+ left ventricle at dark:light and light:dark phase transitions
We investigated differences in gene expression in left ventricular tissue from WT and KPQ (Scn5a/+) ...
GSE156159: Inflammasomes within hyperactive dendritic cells stimulate T cell mediated anti-tumor immunity
Central to anti-tumor immunity are dendritic cells (DCs), which can stimulate long-lived protective...
GSE156138: Uniform approach for pathway and gene-set based analysis of heterogeneity in single-cell epigenome and transcriptome profiles
Representation of single cells in biologically meaningfull terms has potential to improve classical ...
GSE146455: Deficiency of STING-signaling leads to neurogenic abnormalities and Autistic-Like Behaviors in the embryonic cortex [bulk RNA-seq]
Purpose: To gain futher insight into how STING regulates the proliferative of neural progenitors ,R...
GSE153010: Sprr2f protects against renal injury by decreasing the level of reactive oxygen species in female mice
Renal injury leads to chronic kidney disease for which women are not only more likely to be diagnose...
GSE146557: RNA sequencing of mouse CT26 knockout Pd-l1 cells rescued with WT or K262Q Pd-l1
Although membrane-anchored Pd-l1 has been well-studied for its engagement with PD-1 on T cells to ev...
GSE145506: GlioM&M: Web-based tool for studying circulating and infiltrating monocytes and macrophages in glioma
Monocytes, macrophages and microglia make up a large part of the glioma environment and have an impo...
GSE154572: Loss of PRC2 subunits primes lineage choice during exit of pluripotency
Mouse embryoid body differentiation with single-cell analyses of timepoints 0, 4, 7 and 10. Bulk-RNA...
GSE156152: The Influenza non-structural protein 1 (NS1) operates targeted mechanisms to suppress immune gene expression.
Influenza non-structural protein 1 (NS1) has been well cited to ellicit an inhibitory effect of immu...
GSE151821: RUNX2 is a dependency factor in immature and KMT2A-rearranged T-cell acute lymphoblastic leukemia [KARPAS-45 AI-10-104 RNA-seq]
T-cell acute lymphoblastic leukemia (T-ALL) is an aggressive hematologic malignancy with a high inci...
GSE146922: mTORC1 and B cell survival signal regulate formation of memory precursors in the germinal center [1]
A still unanswered question is what drives the small fraction of activated germinal center (GC) B ce...
GSE146518: Fighting against promoter DNA hyper-methylation: Protective histone modification profiles of stress-resistant intestinal stem cells [RNA-Seq]
Aberrant DNA methylation in stem cells is a hallmark of aging and tumor development. Recently, we ha...
GSE153830: Transcriptome changes in MCF-7 and T47D breast cancer cells after four day incubation in glucose deprived medium and beta-hydroxybutyrate
We investigated gene expression changes of glucose deprived MCF-7 and T47D breast cancer cells suppl...
GSE151931: Microbiota-driven arginase 1 expression impedes the resolution of intestinal inflammation
Arginase 1 (Arg1), which converts L-arginine into ornithine and urea, exerts pleiotropic immunoregul...
GSE151151: Paneth cell-derived intestinal luminal lysozyme shapes mucolytic microbiota and controls mucosal inflammatory tone
Paneth cells are the primary, and possibly the sole, source of lysozyme in the intestinal lumen. Mic...
GSE154813: Transcriptome and epigenome diversity and plasticity of muscle stem cells following transplantation
Adult skeletal muscles are maintained during homeostasis and regenerated upon injury by muscle stem ...
GSE154437: RNA-Seq of B6/CAST crosses in major forebrain cell types (bulk)
In mammalian genomes a subset of genes is regulated by genomic imprinting resulting in silencing of ...
GSE134817: Promoter activity profiling reveals on- and off-target transcriptional responses to drug treatment
Owing to safety concerns or insufficient potential for efficacy, only 0.01% to 0.02% of new drug can...
GSE134308: Identification of miR-194-5p target genes in gastric cancer
Increasing studies report that miR-194-5p plays a tumor suppressor role in gastric cancer (GC). Prev...
GSE145642: CAR T cells targeting uPAR are effective senolytics
Cellular senescence is a stress-response program characterized by stable cell cycle arrest and a sec...
GSE157205: Heart failure impairs the mechanotransduction properties of human cardiac pericytes
Aim of this work is to verify if pericytes (Pc) residing in ischemic failing human hearts display al...
GSE153819: Reconstitution of prospermatogonial specification in vitro from human induced pluripotent stem cells
Establishment of spermatogonia throughout the fetal and postnatal period is essential for production...
GSE71325: A Surveillance System of Active Enhancers by a RACK7-histone Demethylase Complex (RNA-Seq I)
Primed enhancers are marked by histone H3K4 mono-methylation (H3K4me1), and the conversion to active...
GSE148897: Role of phosphorylated Gonadotropin-Regulated Testicular RNA Helicase (GRTH/DDX25) in the Regulation of Germ Cell Specific mRNAs in Chromatoid Bodies during Spermiogenesis
In this study, we examined transcriptome profiles of Chromatoid bodies (organelle; CB) of germ cells...
GSE147007: LOX inhibition (BAPN treatment) attenuates satellite cell differentiation
Integration of extracellular matrix (ECM)-derived cues into transcriptional programs is essential pr...
GSE145556: Integrative epigenomic and Master Regulator analysis of adult glioblastoma - mouse RNAseq experiments
Glioblastomas in adult patients are classified into four subtypes, IDH, MES, RTK I, and RTK II, base...
GSE154460: CENP-A overexpression promotes aneuploidy and karyotypic heterogeneity
Centromeric localization of the evolutionarily conserved histone H3 variant, CENP-A. is essential fo...
GSE145665: Genome-wide maps of liver in high-fat fed mice treated with kaempferol
Purpose: The goals of this study were to compare the liver transcriptome (RNA-seq) of mice induced b...
GSE157012: SMARCB1 loss interacts with neuronal differentiation state to block maturation and impact cell stability
We conducted RNA sequencing of control and SMARCB1 knockdown cells at various neural differentiatio...
GSE131525: A composite immune signature parallels disease progression across T1D subjects (RNA-Seq Cohort 0 Cell Sorted)
Technical replicate testing was performed to determine the measurement precision of each analyte. Pe...
GSE68378: Ambient O2 pressure induces NF-kB1/RelA related inflammatory response in human lung epithelial cells in vitro
Purpose: Oxygen (O2) levels in cell culture conditions is typically 2-5 fold higher than the physiol...
GSE149941: LKB1 expressed in dendritic cells governs the development and expansion of thymus-derived regulatory T cells
Liver Kinase B1 (LKB1) plays a key role in cellular metabolism by controlling AMPK activation. Howev...
GSE147450: SIRP- triggers tolerogenic training of resident alveolar macrophages after inflammation, leading to immune paralysis and increased susceptibility to secondary pneumonia
The reprogramming of alveolar macropahges (AM) in mice after resolution of primary bacterial or vira...
GSE147800: Protein Kinase / suppresses liver cancer by repressing autophagy and oxidative phosphorylation in hepatocytes [DH]
Oxidative stress plays a critical role in liver tissue damage and in hepatocellular carcinoma (HCC) ...
GSE146595: Altered regional progenitor dynamics in the neocortexof a BBSOA disease mouse model
The relationships between impaired cortical development and consequent malformations in neurodevelop...
GSE145662: Transcriptomics revealed the putative mechanism underlying the impact of HFL1 fibroblasts with overexpression of GALC on LoVo cell
Purpose:To elucidate the mechanism by which overexpression of GALC senescent fibroblasts promote the...
GSE145704: ANP32E Restricts Widespread Chromatin Accessibility Through Regulation of H2A.Z [RNA-seq]
Genome-wide chromatin state underlies gene expression potential and cellular function. Epigenetic fe...
GSE149859: Single-cell analysis uncovers inter- and intra-organ fibroblast heterogeneity and provides criteria for fibroblast identification and discrimination from vascular mural cells (Colon)
Many important cell types in adult vertebrates have a mesenchymal origin, including fibroblasts and ...
GSE145792: Genome-wide analyses of chromatin interactions after the loss of Pol I, Pol II and Pol III [RNA-seq]
Genome binding/occupancy profiling by high throughput sequencing Expression profiling by high throu...
GSE156985: Gene expression profiles of CD105pos and CD105neg cancer-associated fibroblasts (CAFs) from KPC mice
CD105pos and CD105neg CAFs were isolated from KPC pancreatic ductal adenocarcinoma tumours and gene ...
GSE145839: Targeted deletion of astrocytic Nhe1 stimulates Wnt/-catenin-mediated BBB repair and angiogenesis after ischemic stroke
Roles of reactive perivascular astrocytes in dysregulation of the blood-brain barrier (BBB) function...
GSE157223: An integrative multiomic network model links the canonical lipid metabolism pathway to glucose regulation in coronary artery disease
Elevated plasma cholesterol and Type 2 Diabetes (T2D) are associated with Coronary Artery Disease (C...
GSE148087: Lack of NFATc1 SUMOylation prevents autoimmunity and alloreactivity
Post-translational modification with SUMO is known to regulate the activity of transcription factors...
GSE145730: Topoisomerase 3bis essential for neuronal activity-dependent transcription, neurogenesis, and synaptic and behavioral neuroplasticity
Topoisomerase 3b (Top3b) is the only dual-activity topoisomerase in animals that can change topology...
GSE146526: Microglial transcriptome of Maternal Immune Activation model at different developmental Stages and after microglia repopulation
To determine the transcriptomic changes underlying the MIA microglia phenotype and their reversal by...
GSE156102: Evolutionarily selected overexpression of the cytokine BAFF enhances mucosal immune response against P. falciparum
A variant of the TNFSF13B gene (BAFF-var) increases the production of the cytokine BAFF, up-regulati...
GSE157275: Transcriptome Analysis of Wild Type and HMGB1 knock-out iSLK BAC16 cells
Purpose: RNA sequencing (RNA-seq) has revolutionized systems-based analysis of cellular pathways. Th...
GSE156461: Next Generation Sequencing Quantitative Analysis of altered expression of genes in lncRNA ELNAT1 knockdown bladder cancer cells
Bladder cancer (BCa) is one of the most common genitourinary malignancies worldwide, with a high rec...
GSE154094: Synergistic alterations in multilevel chromatin structure anchor dysregulated genes in small cell lung cancer
Small cell lung cancer (SCLC) is an aggressive form of lung cancer withunique change in chromosomal ...
GSE145820: Structural cells are key regulators of organ-specific immune response
The mammalian immune system implements a remarkably effective set of mechanisms for fighting pathoge...
GSE156729: High-throughput sequencing of OS cells treated with activated compound B5.
The high-throughput sequencing technology was performed after the treatment of human osteosarcoma ce...
GSE150352: A histone H3.3K36M mutation in mice causes imbalance of histone modifications and defects in chondrocyte differentiation [RNA-seq]
Histone lysine-to-methionine (K-to-M) mutations have been identified as driver mutations in human ca...
GSE157021: Genome-wide translational profiling of amygdala Crh-expressing
Here we translationally profiled the transcriptome of Crh-expressing neurons (Crh neurons) within th...
GSE150074: Stromal beta-catenin activation impacts nephron progenitor differentiation in the developing kidney and may contribute to Wilms tumor
Wilms tumor (WT) morphologically resembles the embryonic kidney, consisting of blastema, epithelial,...
GSE156921: Transcriptional effects of activation stimuli on M-CSF-derived macrophages
Analysis of the effect of various activation stimuli on the transcriptional signature of human M-CSF...
GSE153507: Comparison of the transcriptomic profiles of WT and complement C3-deficient mice with rhabdomyolysis-induced acute kidney injury
Rhabdomyolysis is a severe condition caused by skeletal muscle damage, leading to acute kidney injur...
GSE156871: Targeting steroid receptor co-activator 3 sensitizes myeloma cell to proteasome inhibitor treatment through NSD2-mediated phase separation and chromatin remodeling [RNA-Seq]
Functional crosstalk between histone modifications and chromatin remodeling has emerged as a key reg...
GSE148118: Inhibition of Apoptosis Reduces Diploidization of Haploid Mouse Embryonic Stem Cells during the Differentiation
Phenotypes of haploid embryonic stem cells (haESCs) are dominant for recessive traits in mice. Howev...
GSE146672: Single cell RNA sequencing of P7 cortex from Top1 knockout mice
Topoisomerase 1 (TOP1) relieves torsional stress in DNA during transcription and facilitates the exp...
GSE147872: Estrogen-driven control of diabetogenic gene networks is associated with reduced levels of miR-224/452 circulating in extracellular vesicles [RNA-Seq]
Women with diabetes have a higher prevalence of cardiovascular complications than men, suggesting th...
GSE153193: DNA Damage Responses in Mouse Primordial Germ Cells [RNA-Seq]
Germ cells specified during fetal development form the foundation of the mammalian germline. These p...
GSE156963: To determine the differentially expressed genes in cancer associated fibroblasts upon ablation of the glutamatergic synapse protein NetrinG1. [RNA-Seq]
Purpose: To determine the differentially expressed genes in cancer associated fibroblasts upon ablat...
GSE150061: The transcriptional profile of neutrophils in different organs during pancreatic cancer
It was previously demonstrated that myeloid cells assume a distinct transcriptional profile when inf...
GSE154939: Cardiac-dead mouse lungs may remain transplantable at 37C for 4 hours if gas exchange is preserved
Despite a potentially huge number, uncontrolled donation after circulatory death contributed little ...
GSE156207: Low-dose decitabine priming endows CAR T cells with enhanced and persistent anti-tumor potential by epigenetic reprogramming in vivo and in vitro
Chimeric antigen receptor T (CAR T) cells targeting CD19 have achieved breakthroughs in the treatmen...
GSE156903: Differential effects of voclosporin and tacrolimus on insulin secretion from human islets
The incidence of new onset diabetes after transplant (NODAT) has increased over the past decade, lik...
GSE157281: Holistic characterization of single hepatocyte transcriptome responses to high fat diet
Purpose: The goals of this study are to investigate the effects of the long-term high-fat diet to tr...
GSE150358: Anti-human TREM2 induces microglia proliferation and reduces pathology in an Alzheimer's Disease model
TREM2 is a receptor for lipids expressed in microglia. The R47H variant of human TREM2 impairs ligan...
GSE156519: Human bile cholangiocyte organoids originate from the extrahepatic bile duct and can repair bile duct scaffolds in vitro
Cholangiocyte organoids provide a powerful tool for characterizing bile duct epithelium and expandin...
GSE156209: Transcriptome of chronic myelomonocytic leukemia
We report the gene expression of human chronic myelomonocytic leukemia by performing whole transcrip...
GSE146594: RNA-seq transcriptional analysis of mouse lung tissue with and without Coccidioides immitis lung infection
Our previous data suggested that CXC ELR+ chemokines might be involved in neutrophil recruitment to ...
GSE150387: A commensal Clostridium bacteria restricts alphavirus dissemination through a bile acid-type I IFN signaling axis
The emerging alphavirus chikungunya virus (CHIKV) has infected millions of people. However, the fact...
GSE146643: Transcriptome of CD4+ T cells from mice conditionally lacking YAP1 versus WT in different synthetic micromechanical environments
Upon immunogenic challenge, lymph nodes become mechanically stiff as immune cells activate and proli...