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Sequencing-based assays page 88
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GSE130727: Transcriptome Signature of Cellular Senescence
Abstract: Cellular senescence, an integral component of aging and cancer, arises in response to dive...
GSE130759: Lateral transfer of mRNA by migrasomes modifies the recipient cell
we report the discovery of migrasomal RNA. High-throughput deep sequencing was used to identifiy an...
GSE132714: Transcriptional alterations in BPH
We identified a BPH transcriptional signature that included 392 significantly differential expressed...
GSE138642: Stop Codon Context Influences Genome-Wide Stimulation of Termination Codon Readthrough by Aminoglycosides [Dataset 5]
Stop codon readthrough (SCR) occurs when the ribosome miscodes at a stop codon. Such readthrough eve...
GSE131995: Global gene expression profile of human peripheral blood-derived endothelial colony-forming cells is similar to coronary artery and umbilical vein endothelial cells
We performed a transcriptome-wide study to compare gene expression profiles of ECFC, human coronary ...
GSE123350: Bach2 is a critical negative regulator of Tfh cell differentiation
T follicular helper (Tfh) cells are essential for germinal center B cell responses; however, the mol...
GSE130468: WWP2 regulates pathological cardiac fibrosis by modulating SMAD2 signaling
Bulk RNA-seq heart left ventricle data from wild type and WWP2 gene mutant mice (after 28 days of an...
GSE138494: Qualitative changes in cortical thymic epithelial cells drive postpartum thymic regeneration.
During gestation, sex hormones cause a significant thymic involution which enhances fertility. This ...
GSE134526: Whole brain transcriptomic analysis of Tbr1-K228E mutant mice
Mutations of Tbr1, a high-confidence ASD (autism spectrum disorder)-risk gene encoding the transcrip...
GSE133140: CARD9-associated Dectin-1 and Dectin-2 are Required for Protective Immunity of a Multivalent Vaccine Against Coccidioides posadasii Infection
Preparation of sequencing libraries and sequencing analysis using Illumina HiSeq 3000 platform (50 b...
GSE121492: Combined mutation of C/EBPa and GATA-2 induce bi-lineage acute erythroid leukemia through transformation of a neomorphic neutrophil-erythroid progenitor [RNA-seq]
Acute erythroid leukemia (AEL) most commonly involves transformation of both the myeloid and erythro...
GSE121561: RNA-seq in scraped colon epithelium after deletion of Synbindin in mice in colitis-associated cancer model
We previously identified Synbindin promoted gastric and colon cancer development by activating ERK o...
GSE143155: Poor Mitochondrial Reponses to Oxidative Stress in a Subset of Autism Spectral Disorder Patients
Over the past decade, there has been a 10X rise in the prevalence of autism spectrum disorder (ASD) ...
GSE130660: Unlocking the transcriptomic potential of formalin-fixed paraffin embedded clinical tissues: Comparison of gene expression profiling approaches [RNA-Seq]
Background: High-throughput transcriptomics has matured into a very well established and widely util...
GSE130854: The Glycan CA19-9 Promotes Pancreatitis and Pancreatic Cancer In Mice
Gene expression changes in normal pancreatic ductal organoids were isolated from mice with inducible...
GSE124425: Tracing tumorigenesis in a solid tumor model at single-cell resolution
Characterizing the complex composition of solid tumors is fundamental for understanding tumor initia...
GSE122181: Alcohol metabolism directly fuels histone acetylation in the brain [RNA-Seq]
In the adult brain, epigenetic control of gene expression has important roles in the processing of n...
GSE139326: Tumor suppressive long non-coding RNA AFDN-DT inhibits gastric cancer invasion via transcriptional regulation
We identifed genes differentially expression in HGC27 cells withor without AFDN-DT overexpression SO...
GSE130868: Total RNA-seq of siRNA-mediated SRSF1 knockdown
To identify changes in splicing patterns following SRSF1 knockdown, RNA-sequencing was performed on ...
GSE134595: TGF-b-activated LncRNA LINC00115 is a critical regulator for glioma stem-like cell tumorigenicity
Long non-coding RNAs (lncRNAs) are critical regulators in cancer. However, the involvement of lncRNA...
GSE137721: RNA-seq analyses of cochleae from a mouse model of DFNB39
Noncoding microdeletion in mouse Hgf disrupts neural crest migration into the stria vascularis, redu...
GSE126060: Role of myeloid cells in heterotopic ossification (HO) in a burn and incision-induced mouse model
Despite the high frequency of musculoskeletal extremity trauma, little is known about the dynamics o...
GSE131993: RNA-seq of KP and KPI tumor cells isolated from KP and KPI lung adenocarcinoma tumors
RNA-seq analysis of KP and KPI lung adenocarcinoma cells. Analysis revealed activation of Wnt signal...
GSE132790: Transcriptional signature of MAITs in LTBI
We applied a cell population transcriptomics strategy to sorted human memory CD8 T cells to define n...
GSE137772: RNAseq comparison of Ezh2 heterogygous knockout mesenchymal stromal cells verses wild type in young and aged mice
Comparison of gene expression pattern profiles of bone derived Ezh2 heterozygous (Het) mesenchymal c...
GSE133463: Transcriptional effects of YAP/TAZ depletion during oncogene-mediated transformation in mouse astrocyte
To understand the role of YAP/TAZ during gliomagenesis, we compared the transcriptomes of control an...
GSE122336: Single-cell profiling guided combinatorial immunotherapy for breast cancer resistance to Her2/neu and CDK4/6 targeted therapy
Trastuzumab (Herceptin), a humanized monoclonal antibody targeting the extracellular domain of human...
GSE123401: RNA-seq data from VavCre;Jak2+/+; Cdk6+/+, VavCre;Jak2V617F; Cdk6+/+, VavCre;Jak2V617F; Cdk6-/-, VavCre; Jak2+/+; Cdk6-/- murine bone marrow LSK cells and VavCre; Jak2V617F; Cdk6+/+ Palbociclib treated murine bone marrow LSK cells
We describe a critical role for Cdk6 in JAK2V617F+ MPN evolution. The absence of Cdk6 ameliorates cl...
GSE133180: Microglia and infiltrating monocytes gene expression profiling during EAE progress
The project was designed to figure out the role of microglia in brain inflammation (EAE model). The ...
GSE131335: RNA-seq of mRNA from whole mouse liver
In this study we want to map the gene expression profile of liver infected with Adenovirus, either t...
GSE124598: Differentially expressed genes by DMSO in mouse 2-cell embryos identified by RNA sequencing
Since discovery of dimethyl sulfoxide (DMSO), it has been applied to the multidisciplinary studies f...
GSE129915: HMGA1 and FOXM1 synergistically regulate a common gene network modulating angiogenesis in breast cancer
One of the factors involved in TNBC aggressiveness is HMGA1, a member of non-histone chromatin prote...
GSE123457: YAP Partially Reprograms Chromatin Accessibility to Directly Induce Adult Cardiogenesis in Vivo
Specialized adult somatic cells, such as cardiomyocytes (CMs), are highly differentiated with poor r...
GSE130456: comparative RNA-seq analysis of murine lung infected with A.fumigatus
We report the application of RNA-seq analysis for high-throughput profiling of murine lungs infected...
GSE132701: Myocardial G protein-coupled receptor kinase 5 contributes to impaired cardiac function and immune cell recruitment in ischemic heart failure
Myocardial ischemia (MI) is the most common cause of heart failure (HF) in the United States. G prot...
GSE125683: The Firre locus produces a trans-acting RNA molecule that functions in hematopoiesis
We used the Functional intergenic repeating RNA element (Firre) locus - a conserved intergenic lncRN...
GSE131344: Xenobiotic-induced perturbations of cis-regulatory elements associated with sensitivity to liver tumor promotion
Liver cancer susceptibility varies between strains of experimental animal models due to multiple gen...
GSE132781: transcriptional analysis of bulk monocytes isolated from patients post-bariatric surgery undergoing a standardized liquid mixed-meal test intended to provoque postprandial hypoglycemia, upon treatment with either placebo, anakinra or empagliflozin
Postprandial hypoglycemia is a disabling complication of bariatric surgery. So far, no therapy exist...
GSE133211: PRC2 activates interferon-stimulated genes indirectly by repressing miRNAs in glioblastoma
Purpose: The goal of this study was to identify genes induced upon type I and II interferon response...
GSE133473: Requirement for Cleavage Factor IIm in the Control of Alternative Polyadenylation in Breast Cancer Cells
This experimental series concerns the position bias and extent of 3'-end choice in MCF7 cells after ...
GSE122215: Peg10 regulation of TSC differentiation
The prevailing dogma that approximately 50% of our genome is junk DNA composed of transposable eleme...
GSE129906: TCR and inflammatory signals tune human MAIT cells to exert specific tissue repair and effector functions
We sought to describe in detail human MAIT cell activation using a transcriptomic approach to define...
GSE123825: GLUD1 blockade triggers glutamine production by macrophages, nourishing satellite cells and promoting muscle regeneration
RNAseq was performed on Glud1-deficient macrophages vs. WT macrophages sorted at baseline and at the...
GSE145469: Co-inhibition of BET proteins and PI3K triggers mitochondrial apoptosis in rhabdomyosarcoma cells
Remodeling transcription by targeting bromodomain and extraterminal (BET) proteins has emerged as pr...
GSE130752: Transcriptome and proteome profiling of neural stem cells from the human subventricular zone in Parkinson's disease
It is currently accepted that the human brain has a limited neurogenic capacity and an impaired rege...
GSE130619: Novel role of proton-secreting epithelial cells in sperm maturation and mucosal immunity
We identify clearly distinct transcriptomic signatures between clear cells from the caput, corpus an...
GSE130395: Transcriptome profiling of prostate cancer cells on GLYATL1 knockdown
The protein Glycine-N-Acyltransferase Like 1 (GLYATL1) is involved in detoxification of benzoate and...
GSE132030: Tox reinforces the phenotype and longevity of dysfunctional T cell populations during chronic viral infection [KO vs WT Day 8]
Chronic CD8 T-cell stimulation in persisting infections or tumors can induce a stable gene expressio...
GSE130452: Examining the role of ATRX-RNA interactions in ATRX and PRC2 localization and gene expression.
We disrupted the RNA binding region in endogenous ATRX and tested localization of ATRX, EZH2 and H3K...
GSE143156: c-Rel gain in B cells dose-dependently drives germinal center reactions and autoantibody production in mice
Single nucleotide polymorphisms and locus amplification link the NF-B transcription factor c-Rel to ...
GSE145202: Deletion of brain-specific isoforms of adapter protein SH2B1 protects mice from obesity in a non-leptin-mediated manner
Deletion or mutation of SH2B1 (SH2-B, PSM) is associated with severe obesity and insulin resistance ...
GSE130792: Raptor determines -cell identity and plasticity independent of metabolic state
In this study, we employed RNA-seq technology to identify the exact role of mTORC1 on -cell identit...
GSE133357: Regional transcriptional differences between human cerebellar and forebrain (superior temporal gyrus) microglia
Bulk RNA sequencing of purified primary human microglia from superior temporal gyrus and cerebellum ...
GSE125002: Gene expression signatures of chemotherapy-induced neuropathy induced by cisplatin and oxaliplatin
Vincristine, oxaliplatin, and cisplatin are commonly prescribed chemotherapeutic agents for the trea...
GSE136664: YTHDF1 Amplifies Wnt/-Catenin Signaling to Promote Intestinal Stemness
Wnt/-catenin signaling is essential for intestinal stem cell homeostasis and aberrant activation of ...
GSE130475: Gene expression in WT and Thpok-deficient LCMV-specific effector T cells after retroviral transduction
Gene expression of transduced effector CD4+ T cells determined by RNAseq 7 days after LCMV Armstrong...
GSE130815: Macrophages + Vitamin A
We are interested in whether peritoneal LCM are programmed by omental Wt1+ stroma (identified as PDP...
GSE134835: RNA sequencing analysis of the CAL-27 cell response to over-expressed ZNF750 gene
Background: Zinc-finger protein 750 (ZNF750) is a potential tumor suppressor in oral squamous cell c...
GSE126015: Analysis of murine neonatal Germinal Center (GC) B cells transcriptome (RNA-Seq) following HA/CAF01 immunization in the presence or absence of maternal antibodies
Purpose: the goals of this study are to characterize GC B cells elicited by neonatal immunization wi...
GSE124190: PLZF limits enhancer activity during hematopoietic progenitor aging
PLZF (promyelocytic leukemia zinc finger) is a transcription factor acting as a global regulator of ...
GSE130804: Identification of HIV Transmitting CD11c+ Human Epidermal Dendritic Cells
Langerhans cells (LC) represent one of the first lines of contact between the immune system and sexu...
GSE131277: Investigating the genetic interaction between Pkhd1 and Pkd1
The lack of rapidly progressive murine models reflecting the classical infantile disease in ARPKD in...
GSE136091: Long-term EEF2 depletion in mouse liver leads to mTOR-independent translational upregulation of ribosomal genes
According to ample experimental evidence, decreasing protein synthesis by inhibiting mTORC1 increase...
GSE132322: Cell-autonomous transcriptional mechanism for enhancement of translation capacity in secretory cells [RNA-Seq IL]
Translation is a basic cellular process and its capacity is adapted to cell function. In particular,...
GSE129942: Effect of ER stress on MUC1 kidney disease patient derived cells and and treatment by BRD4780
immortalized patient derived kidney epithelial cell were compared to cells exposed to ER stress (tha...
GSE136699: Transcriptional profiling of neurons in the thalamus of a Cbln1-TRAP (NIDA030) mouse line
TRAP translational profiling is a method that allows investigators to genetically characterize speci...
GSE132635: Epigenetic and Transcriptional Regulation of Supporting Cell to Hair Cell Transdifferentiation
Purpose: We have recently extablished a new protocol for the generation of inner ear organoid or Lgr...
GSE138620: Effect of IgG-clustered Ephrin-A5 stimulation on EphA2 signaling in MDA-MB-231 and U3013 cell lines
Ligand binding induces extensive spatial reorganization and clustering of the EphA2 receptor at the ...
GSE132048: Linking Indirect Effects of Cytomegalovirus to Modulation of Monocyte Innate Immune Function
Purpose: To use next-generation sequencing (NGS) to dissect the human monocyte-CMV host-pathogen int...
GSE132724: Expression profiling of mouse HPC7 cells
We have expressed mouse Snai1, mutant Snai1 or empty vector in the HPC7 cell line and performed RNA ...
GSE123863: Transcriptome profiling of neonatal heart regeneration
Background: The adult mammalian heart has limited capacity for regeneration following injury, wherea...
GSE130396: Neratinib, a Pan ERBB/HER Inhibitor, Restores Sensitivity of PTEN-null, BRAFV600E Melanoma to BRAF/MEK Inhibition
The A375, human BRAFV600E mutant melanoma, cell line (wildtype), two PTEN-null, BRAFV600E cell line...
GSE137813: A novel Menin-MLL inhibitor induces specific chromatin changes and eradicates disease in models of MLL-rearranged leukemia [RNA-Seq II]
Using 3-end RNA-seq followed by digital gene expression analyses we assessed genes that change expre...
GSE125026: Transcriptomic Analysis of Cellular Pathways during Healing of Flexor Tendons in Plasminogen Activator Inhibitor Type 1, Member 1 (PAI-1/Serpine1) Null Mice
Injuries to flexor tendons can be complicated by fibrotic adhesions, which severely impair the funct...
GSE131955: Nogo maintains muscle integrity and regulates muscle regeneration via modulating Nogo-A expression
Nogo, also called RTN4, functions through three isoforms including Nogo-A, -B, and -C. Although Nogo...
GSE129862: Chemical Inhibition of Salt-Inducible Kinase as Therapeutic Strategy in Acute Myeloid Leukemia [RNA-Seq]
Transcriptome analysis by high throughput sequencing SOURCE: Yusuke Tarumoto (ytarumot@cshl.edu) - ...
GSE138670: Transcriptome-wide maps of mouse interneurons after chronic stress
Using Sst and parvalbumin subtype-specific fluorescence activated cell sorting (FACS) and RNA sequen...
GSE130772: RNA-Seq from human ILC transitional populations
Innate lymphoid cells (ILCs) are tissue-resident lymphocytes subdivided into ILC1s, ILC2s and ILC3s ...
GSE132332: Paired-end RNA-seq in HepG2 cells
The effect of NF90 on transcript abundance was measured using RNA-seq. SOURCE: Rosemary KiernanGene ...
GSE123502: CHD4 is essential for transcriptional repression and lineage progression in B lymphopoiesis [RNA-seq]
Cell-lineage specification is a tightly regulated process that is dependent on appropriate expressio...
GSE126115: Transcriptome profiling of spleen and duodenum upon lymphotoxin beta receptor (LTbR) induction
To study the effect of LTbR induction on spleen and duodenum transcriptome, we performed RNA sequenc...
GSE132032: Tox reinforces the phenotype and longevity of dysfunctional T cell populations during chronic viral infection [ToxKO vs WT Day 20]
Chronic CD8 T-cell stimulation in persisting infections or tumors can induce a stable gene expressio...
GSE130810: Kinetics of cytokine receptor trafficking determine signaling and functional selectivity
Cytokines activate signaling via assembly of cell surface receptors, but it is unclear whether modul...
GSE124603: Contextual epigenetic regulation of lung adenocarcinoma by GATA6 [RNA-Seq]
Lineage selective transcription factors (TFs) are important regulators of tumorigenesis, but their b...
GSE129962: Exercise Reverses Dysregulated Gene Expression in a Desmoplakin Haplo-insufficient Mouse Model of Arrhythmogenic Cardiomyopathy
Mutations in desmosome genes cause arrhyythmogenic cardiomyopathy (ACM). Using desmoplakin haploinsu...
GSE136647: Dysregulation of host gene expression by mouse papillomavirus type 1 (MmuPV1) infection
We performed comprehensive analysis of host gene expression in MmuPV1 infected ear tissues with tumo...
GSE134641: In vitro transcriptomic responses to thioacetamide-S-oxide exposure in human primary hepatocytes, renal tube epithelial, and cardiomyocytes
In this study we tested the ability to predict organ injury endpoints from in vitro transcriptomics ...
GSE131369: Effect of depletion of KDM4D, NFIB, and MLL1 on gene expression during adipogenic differentiation of C3H10T1/2 mesenchymal stem cells
To investigate the cooperative function KDM4D/NFIB/MLL1 complex in the regulation of adipogenic diff...
GSE124370: Disruption of FBXL5-mediated cellular iron homeostasis promotes liver carcinogenesis
Hepatic iron overload is a risk factor for progression of hepatocellular carcinoma (HCC), although t...
GSE133523: Modeling Human Cancer-induced Cachexia (Human)
Cachexia is a wasting syndrome characterized by pronounced skeletal muscle loss. In cancer, cachexi...
GSE123508: Single-cell RNA-seq of UTC population in sarcoma mice models
Neutrophils represent a fundamental mechanism of antimicrobial resistance and inflammation 1. Moreov...
GSE138093: High level DNA repair gene expression in human ES cells
Many studies have reported that human embryonic stem (hES) cells have an exceptional ability to repa...
GSE122378: Gene expression profiling of control and Carmil3-deficient 4T1 cells
To systemically study the molecular function of CARMIL3 in cancer cells, we used mammary tumor cells...
GSE131032: Time-series reveals processes underlying colon inflammation and repair
To elucidated through an unbiased manner which genes and pathways are differentially regulated durin...
GSE134874: RNA-seq analysis of immune responses from human blood monocyte dendritic cells from 3 donors stimulated with 5 pattern recognition receptor (PRR) ligands along with their pairwise and triplet combinations
In this study, we hypothesized that the effects of higher-order combinations of microbial stimuli ca...
GSE138301: Sequential expression profile of feeder-free iPSC-derived gliogenic NS/PCs by RNA-seq
We performed RNA sequencing to profile the temporal dynamics of gene expression during gliogenic NS/...
GSE139325: Targeting CD36-PPAR signaling-mediated metabolic adaptation in intratumoral Tregs primes tumors for PD-1 blockade
Though high frequency of Tregs in tumor obstructs anti-tumor immune responses, systemic depletion of...
GSE132289 (human): Mouse ovarian cancer models recapitulate the human tumor microenvironment and patient response to treatment
Although there are many prospective targets in the tumor microenvironment (TME) of high-grade serous...
GSE126127: Comprehensive transcriptome analysis of the brain in CNS-specific PRMT1 knockout mice.
Arginine methylation is a common post-translation modification that is catalyzed by protein arginine...
GSE132958: Lentiviral CRISPR Epigenome Editing of Inflammatory Receptors as a Gene Therapy Strategy for Disc Degeneration
Background: Degenerative disc disease (DDD) is a primary contributor to low back pain, a leading cau...