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Sequencing-based assays (Page 105)
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GSE145309: m6A methylation regulates the fate of endogenous retrovirus transcripts [RNA-seq]
Using a genome-scale CRISPR knockout screening in mouse embryonic stem cells, we identify m6A RNA me...
GSE143612: C/EBP is crucial determinant of epithelial maintenance by preventing epithelial-to-mesenchymal transition
RNA-sequencing of human mammary epithelial cells (HMLEs) that were lentivirally transduced with vect...
GSE148662: CD5 levels define functionally heterogeneous populations of nave human CD4+ T cells
Studies from mouse models show that differences in self-reactivity, as read-out by CD5 levels, ident...
GSE140652: Transcriptome analysis of xenograft tumors treated with vehicle control or CBL0137
RNAseq was used to identify host and viral transcriptome changes in xenograft tumors treated with DM...
GSE133506: Nuclear Myosin I regulates genome stability by controlling p21 gene activation through a chromatin-based mechanism
Nuclear myosin 1 (NM1) has been implicated in key nuclear functions. Here, we show NM1 has a global ...
GSE154928: A distinct CD38+CD45RA+ population of CD4+, CD8+ and double-negative T cells is controlled by FAS (II)
The identification and characterization of rare immune cell populations in humans can be facilitated...
GSE149193: mRNA sequencing of P0 primary WT and Mettl3/14nKO mouse islets
Using RNA-seq, we identified 945 differentially expressed genes in P0 KO islets, compared to WTfc>1....
GSE136417: Maternal exposure to a mitochondrial toxicant results in life-long alterations in DNA methylation and gene expression in the offspring
We exposed dams to rotenone starting 2 weeks prior to conception all the way to the end of lactation...
GSE143637: Iterative single cell analyses define the transcriptome of the first functional hematopoietic stem cells
Whereas hundreds of endothelial cells in the aorta-gonad-mesonephros (AGM) region transdifferentiate...
GSE151068: Repression of Irs2 by let-7 miRNAs is essential for the homeostasis of the telencephalic neuroepithelium [RNA-seq]
The structural integrity and cellular homeostasis of the embryonic stem cell niche are critical for ...
GSE134273: A single cell atlas of tumor resistance to PD-1 blockade and radiotherapy: Bulk Tumor RNA Sequencing
Abstract: Transplanted tumors in syngeneic mice treated with immune checkpoint blockade and radiothe...
GSE141726: RNAseq analysis of Angiotensin II or PBS perfused Apolipoprotein E deficient mice
We report the transcriptomic analysis of RNA-seq of aortas isolated from ApoE-/- mice exposed to Ang...
GSE149775: Asian Zika virus isolate significantly changes the transcriptional profile and alternative RNA splicing events in a neuroblastoma cell line
Total RNA was isolated for preparation of RNAseq libraries and sequenced on the Illumina NextSeq500 ...
GSE147842: Adult mouse hippocampal transcriptome changes associated with long-term behavioral and metabolic effects of gestational air pollution toxicity
Gestational exposure to air pollution increases the risk of autism spectrum disorder and cognitive i...
GSE147077: Setd2 knockdown.
Setd2 knockdown leads to subtle but significant changes in gene expression and alternative splicing....
GSE134226: Distinct tissue-specific roles for the disease-associated autophagy genes ATG16L2 and ATG16L1
The clear role of autophagy in human inflammatory diseases such as Crohns disease was first identifi...
GSE134279: The chromatin remodeler Snf2h is essential for oocyte meiotic cell cycle progression
Oocytes are indispensable for mammalian life. Thus, it is important to understand how mature oocytes...
GSE134296: RNA-seq Analysis of Differential Gene Expression in Wild-type Versus FOXC2-deficient B16-F1 Melanomas
The FOXC2 transcription factor regulates a variety of developmental and biological processes in both...
GSE133636: CxxC Finger Protein 1-mediated Histone H3 Lysine-4 Trimethylation is Essential for Proper Meiotic Crossover Formation in Mice
CXXC finger protein 1 (Cfp1) is a DNA-binding component of the SETD1 methyltransferase complex, targ...
GSE143621: Global assessment of integrated stress response in CF patients lung explants and organoids
Freshly acquired lung tissue from CF patients with advanced disease and prolonged exposure to pathog...
GSE156900: Immune cells transcriptome
RNA seq of dendritic (CD86+), mast (FCER+) and other cells (CD86-FCER-) derived from DMSO, SR1 (500...
GSE142024: The RNA helicase DDX5 supports mitochondrial function in small cell lung cancer
DDX5 is a founding member of the DEAD-box RNA helicase family, which are a group of enzymes that reg...
GSE149210: Experience recruits MSK1 to expand the dynamic range of synapses and enhance cognition
Experience powerfully influences neuronal function and cognitive performance, but the cellular and m...
GSE143610: TRIM3 depletion in MCF-7 cells
We depleted TRIM3 in MCF-7 cells to check the change of the overall genomic profiling SOURCE: Le Wu ...
GSE142100: Application of text mining to build AOP-based mucus hypersecretion genesets and validation with in vitro and clinical samples
Purpose: Build genesets using text mining and validate the geneset with data from public repository ...
GSE155405: Kidney tertiary lymphoid structures in Lupus Nephritis develop into large interconnected networks and resembles lymph nodes in gene signature.
Immune aggregates organized as tertiary lymphoid structures (TLS) are observed within kidneys of sys...
GSE143671: RNA Sequencing of postnatal mouse Math1-Cre; Sufu flox/- cerebellum
Transcriptional profiling to identify genes differentially regulated by Sufu during cerebellum devel...
GSE134304: Expression profiles of mouse skeletal muscle tissues, mouse skeletal muscle from Aged animals with high fat diet and chemical treatment
Expression profiles of mouse skeletal muscle tissues, mouse skeletal muscle from Aged animals with h...
GSE134523: Fate mapping via Ms4a3 expression history traces monocyte-derived cells
We performed a single-cell transcriptomic analysis of monocyte and monocyte progenitors by single-ce...
GSE149254: Organ of Corti size is governed by Yap/Tead-mediated progenitor self-renewal
We report on gene expression, chromatin accessibility, active histone marks distribution, and Tead D...
GSE147821: Complexity and tumor potential of human embryonic sympatho-adrenal area including neural crest and mesodermal derivatives
We addressed heterogeneity of neural crest- and mesoderm-derived lineages developing into adrenal gl...
GSE134327: Arctigenin attenuates diabetic kidney disease through the activation of PP2A in podocytes
Arctigenin (ATG) is a major component of Fructus Arctii, which as a traditional herbal remedy reduce...
GSE145085: Evaluation of cisplatin-induced injury in human kidney organoids
Acute kidney injury (AKI) remains a major global healthcare problem and there is a need to develop h...
GSE143649: Non-biased genome-wide mRNA profiling of triazoloacridone C-1305 effects in human cell lines
In this study we used unbiased approach in the lung cancer and colon cell lines (A549 and HTC 116 re...
GSE134267: Dnmt3a and Dnmt3b-mediated decommissioning of fetal enhancers linked to kidney disease
Cytosine methylation is an epigenetic mark that dictates cell fate and response to stimuli. The timi...
GSE152420: Pediatric MDS-Associated Germline Mutations in SAMD9 and SAMD9L Impair Multiple Pathways in Primary Hematopoietic Cells
Here, we used a lentiviral over-expression approach to assess the functional impact and underlying c...
GSE144279: Functional genomic consequences of MBD5 knockdown in mouse brain and CRISPR-derived neurons [cell lines]
Background: MBD5, encoding the methyl-CpG-binding domain 5 protein, has been proposed as a necessary...
GSE151190: Disruption of WNT-LMX1A Regulatory Loop During Midbrain Dopaminergic Neuron Development in Human DNAJC6 Parkinson Disease Model
In this study, human isogenic model of juvenile onset PD caused by DNAJC6 mutation were made. Human ...
GSE143659: p70 S6 Kinase 1-dependent alterations in cortical mRNA translation in fragile X syndrome mice
Fragile X syndrome (FXS) is caused by loss of the fragile X mental retardation protein (FMRP). The m...
GSE147035: Characterization of True Germinal center follicular helper T cells
Despite interest in T follicular helper (TFH) cell development and function, differences between TFH...
GSE148207: Resident macrophages promote homeostasis of hyaluronan-associated extracellular matrix in the mammary gland stroma
Tissue resident macrophages in the mammary gland are found in close association with epithelial stru...
GSE151244: Single-cell analysis of mouse plasmacytoid dendritic cells (pDCs) unravels their activation trajectory and their molecular regulation in vivo during a viral infection [FB5P-seq_C57Bl6]
The aim of the project is to understand the heterogeneity of murine plasmacytoid dendritic cells (pD...
GSE145348: CRISPR repair in a preclinical model of Noonan syndrome associated cardiomyopathy I
We profiled RNA expression in human iPSC-derived cardiomyocytes from patients with LZTR1-associated ...
GSE149262: RNA-sequencing analysis of transcriptional changes in DLD-1 KRAS MUT and WT isogenic cells following IL-22 or IL-6 stimulation
The cytokine IL-22 promotes tumor progression in murine models of colorectal cancer (CRC). However, ...
GSE143627: Inactivated M. tuberculosis and M.tuberculosis Infection remodels the macrophage response
Background: Tuberculosis (TB) remains a major public health problem, especially in developing count...
GSE151237: On the NF-Y regulome as in ENCODE (2019)
The ongoing ENCODE consortium represents a useful compendium of locations of TFs, chromatin marks, g...
GSE157359: Cell type-specific oxidative stress genomic signatures in the globus pallidus of dopamine depleted mice
We developed a new viral affinity purification strategy, Cre-Specific Nuclear Anchored Independent L...
GSE155788: Mapping endothelial-cell diversity in cerebral cavernous malformations at single cell resolution
Cerebral cavernous malformation (CCM) is a rare neurovascular disease that is characterized by enlar...
GSE145371: LncRNA NRAV promotes respiratory syncytial virus (RSV) replication by regulating vesicle transportation via targeting miR-509-3p/Rab5c axis
NRAV could act as a ceRNA in NRAV/miR-509-3p/Rab5c axis during RSV infection, thus promoting RSV ves...
GSE144601: Human iPSC-derived neurons and cerebral organoids establish differential effects of germline NF1 gene mutations
Neurofibromatosis type 1 (NF1) is a common neurodevelopmental disorder caused by a spectrum of disti...
GSE145004: Determining transcriptome changes in whole spinal cord of Gcn2-/-;GarsP278KY/+ adult mice [18-burgess-011]
To determine transcriptome changes in adult spinal cord induced by the combined effect of having the...
GSE145381: Total RNA sequencing data of murine bone marrow derived macrophages from WT and Treml4 deficient mice
Treml4 has been recently characterized as a protein-coding gene of the Trem family. It has been show...
GSE135021: Global translation during early development depends on the essential transcription factor PRDM10 [RNA-seq]
Members of the PR/SET domain-containing (PRDM) family of zinc finger transcriptional regulators play...
GSE149263: Expression analysis of white adipose, brown adipose tissue and gastrocnemius muscle isolated from tumor bearing mice treated with control IgG1 or anti-GFRAL 3P10
RNA sequencing of white adipose, brown adipose tissue and gastrocnemius muscle isolated from non-tum...
GSE148010: Dysregulated erythroid gene expression after TET2 loss is partially corrected by 5-azacytidine in TF-1 cells [RNA-seq]
Using bisulfite padlock probes, mRNA sequencing, and hydroxymethylcytosine pull-down sequencing, we ...
GSE134301: Tnfaip2/Exoc3 driven lipid metabolism is essential for stem cell differentiation & organ homeostasis [Mus musculus, 1]
Lipid metabolism is recognized as a key process for stem cell maintenance and differentiation but ge...
GSE143630: Prognostic Molecular Signatures for Metastatic Potential in Clinically Low-Risk Stage I and II Clear Cell Renal Cell Carcinomas
Presented is the differential expression of mRNA and miRNA in 44 Stage I and Stage II patients who d...
GSE145044: RNA-Seq profiling of LAQ vs Control mice
Illumina mRNA-Seq, 18-20 million single end reads/sample with Bioinformatics of LAQ vs Control mice;...
GSE136869: Transcriptome analysis using RNA sequencing of the hippocampus of aged LPAR2-/- versus wildtype control mice
We assessed the effect of a deletion of the lysophosphatidic acid receptor, LPAR2 in mice on gene re...
GSE145358: Transcriptomic analysis of intestinal mucosa reveals covert condition in celiac patients on gluten free diet
Background & Aims: Traditional celiac disease diagnostics based on histomorphometric evaluations are...
GSE148100: Gene expression profiling in diptoindonesin G-treated MDA-MB-231 cells
To understand the role of diptoindonesin G in the regulation of differentiation of breast cancer cel...
GSE134805: Biological sex influences susceptibility to Acinetobacter baumannii pneumonia in mice
Through our studies using a murine model of acute pneumonia with A. baumannii, we observed that fema...
GSE143688: IL-36 signaling in keratinocytes controls early IL-23 production in Aldara-induced skin inflammation in mice
IL-36R signaling plays an important role in the pathogenesis of psoriasis. We ought to assess the sp...
GSE136377: Transgenerational self-reconstruction of disrupted chromatin organization after exposure to an environmental stressor in mice
Exposure to environmental stressors is known to increase disease susceptibility in unexposed descend...
GSE144296: A highly scalable method for joint whole genome sequencing and gene expression profiling of single cells
To address how genetic variation alters gene expression in complex cell mixtures, we developed Direc...
GSE145104: RNAseq of mRNA from splenic and hepatic CD8 T cells in ND and CD-HFD mice
In this study we want to compare the gene expression profile of CD44+CXCR6+ CD8+ T cells from the li...
GSE142173: Endogenous retroviruses act as enhancers to drive species-specific germline transcriptomes in mammals
Gene regulation in the germline ensures the production of high-quality gametes, long-term maintenanc...
GSE154029: Total RNA-Seq in TRAF4-overexpressing castration-resistant xenograft tumors and the control castration-responsive tumors
We reported the tumor total gene expression TRAF4-overexpressing castration-resistant xenograft tumo...
GSE134286: Locally renewing resident synovial macrophages provide a protective barrier for the joint
Macrophages (Ms) are considered to contribute to chronic inflammatory diseases such as rheumatoid ar...
GSE145101: Transcriptome profiling of WM3248 melanoma cells following PGC1-alpha knockdown
PGC1-alpha is a transcriptional coactivator that controls diverse cellular processes, including meta...
GSE136442: CX3CR1+ mononuclear phagocytes gene-expression profile based on their location in the epididymis using RNA-sequencing
In the epididymis, prevention of autoimmune responses against spermatozoa, while providing protectio...
GSE143699: Next generation sequencing of human monocyte derived dendritic cells stimulated with MGL-stimulating glycodendrimers in the absence or presence of LPS
To investigate the effect of MGL ligation in monocyte-derived dendritic cell biology, we generated c...
GSE149754: Different mechanisms of hypersynchrony initiation lead to divergent transcriptome changes in the mouse forebrain
Sodium and potassium channelopathies could lead to seizures and epilepsy through two broad mechanism...
GSE145136: RNA sequencing of infected and uninfected WT and HIF-1-/- peritoneal macrophages
The goal of this study is to perform transcriptome profiling of both infected and uninfected WT and ...
GSE145065: LncRNA and mRNA expression profile of peripheral blood mononuclear cells in primary Sjgrens syndrome patients
RNA-seq technology was used to detect the differentially expressed LncRNAs and mRNAs between five pa...
GSE136470: Enhanced and selective translation expands the lysosome size and promotes antigen presentation during phagocyte activation
The mechanisms that govern organelle remodeling remain poorly defined. Lysosomes degrade cargo from ...
GSE145103: Retinal astrocyte transcriptome reveals an important role for Cyp1b1 expression in modulation of cell adhesive and migratory properties
Global genome-wide sequencing analysis of RNA prepared from Cyp1b1-/-AC and Cyp1b1+/+AC was perfomed...
GSE147034: Excessive -catenin in excitatory neurons results in reduced social and increased repetitive behaviors and altered expression of multiple genes linked to human autism
Multiple human autism risk genes are predicted to converge on the catenin (cat)/Wnt pathway. However...
GSE136954: Glucocorticoid Regulates Mesenchymal Cell Differentiation Required for Perinatal Lung Morphogenesis and Function
We integrated genome-wide gene expression profiling, ATAC-seq, and single cell RNA-seq data in mice ...
GSE143717: Low-Dose Silver Nanoparticle Surface Chemistry and Temporal Effects on Gene Expression in HepG2 Cells
We examined effects of surface-coating (BPEI, CIT, PEG) of silver nanoparticles and time (6h, 12h, 2...
GSE145033: Total RNA-seq on purified neutrophils from healthy humans
The goal of this study was to analyze the transcriptome of circulating neutrophils from healthy huma...
GSE145915: PCM1 is necessary for focal ciliary integrity and is a candidate for severe schizophrenia
The neuronal primary cilium and centriolar satellites have established roles in neurogenesis. Howeve...
GSE136894: 2-adrenergic agonists rescue lysosome acidification and function in PSEN1 deficiency by reversing defective ER to lysosome delivery of ClC-7
Lysosomal dysfunction is considered pathogenic in Alzheimer Disease (AD). Loss of Presenilin-1(PSEN1...
GSE143326: Inhibition of miR-21 regulates mutant KRAS effector pathways and intercepts pancreatic ductal adenocarcinoma development
We identified miR-21 and miR-224 as cell-specific and compartment-specific regulators in PanINs and ...
GSE147739: Total RNA sequencing of AKAP12 knockdown cells
We compared gene expression in AKAP12 knockdown and control cells in the SW480 background. SOURCE: H...
GSE151229: The mammalian cap-specific m6Am RNA methyltransferase PCIF1 regulates transcript levels in mouse tissues
The 5' end of eukaryotic mRNAs is protected by the m7G-cap structure. The transcription start site n...
GSE147636: RNA-seq analysis for VCPWT and VCPT76A breast tumor
Proper centrosome movement to the bipolar position is a prerequisite for bipolar spindle orientation...
GSE143320: Methionine metabolism shapes T helper cell responses through regulation of epigenetic reprogramming [RNA-Seq]
Epigenetic modifications on DNA and histones regulate gene expression by modulating chromatin access...
GSE143732: Transcriptome analysis of Chx10-Cre Rb1/p107 and Chx10-Cre Rb1/p107/Hells tumors
We used novel genetically engineered mouse models to investigate the role of HELLS during tumorigene...
GSE144610: Highly-motile versus unsorted bulk primary Glioblastoma cells from two patients (GBM965 and GBM897)
Glioblastoma (GBM) is the most aggressive form of brain cancer, characterized by high recurrence and...
GSE148352: RNA-seq of AKP organoids over different stages of differentiation
Transcriptomic profiling of mouse tumoroids at early (2 days of Apc restoration) versus late stage d...
GSE149203: Neurog3 gene dosage effect on the differentiaiton of intestinal enteroendocrine progenitors
Analysis of FACS-sorted intestinal Neurog3+/+ and Neurog3+/- cells from Neurog3 fluorencent reporter...
GSE142479: Neurofibromin is an Estrogen Receptor alpha Transcriptional Co-repressor in Breast cancer
We report that neurofibromin, a tumor suppressor and Ras-GAP (GTPase Activating Protein), is also an...
GSE134656: Characterization of FOXA1 mutations in breast cancer (RNA-seq)
Invasive Lobular Carcinoma (ILC) is the second most frequent breast cancer (BCa) type and encompasse...
GSE144701: Endothelial to Mesenchymal Transition compromises vascular integrity to induce hypoxia and Myc mediated metabolic reprogramming of tubular epithelial cells in kidney fibrosis
The aim of this study was to identify the functional impact of Endothelial-to-Mesenchymal Transition...
GSE143662: Global RNA stability profiling reveals stabilization of P-body-enriched transcripts in the absence of human Dcp2
Multiple RNA decapping enzymes coexist in mammalian cells to regulate decay of distinct subsets of c...
GSE131378: Hypoxia response of human cancer cells
The transcriptome-wide response of breast and lung cancer cells to chronic hypoxia was analyzed. Dif...
GSE131983: Acquired resistance to combined BET and CDK4/6 inhibition in triple-negative breast cancer [RNA-Seq]
BET inhibitors are promising therapeutic agents for the treatment of triple-negative breast cancer (...
GSE144579: Hippo-YAP signaling controls lineage differentiation of mouse embryonic stem cell through super-enhancers [RNA-seq]
Hippo-YAP signaling pathway is a highly conserved pathway during evolution. It involves in a broad s...
GSE153966: Determine differences in gene expression between OPSCC cell lines with different sensitivity to IR
mRNA sequencing was performed on 10 oropharyngeal cancer cell lines (5 HPV-positive and 5 HPV-negati...