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Sequencing-based assays (Page 45)
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GSE84454: Effect of KCNK3 mutations on hypoxic mice lungs studied by RNASeq
We sequenced RNA from lungs of mice, subjected to hypoxia, with or without KCNK3 knockout mutations ...
GSE82008: The effect of genetic and chemical inhibition of NF-kB subunits on the regulatory T cell (Treg) transcriptome
We report here the transcriptome analysis on murine total, resting and activated Treg cells after ch...
GSE150176: scRNAseq of CD45+ cells within PDAC tumors treateted with CD40/ICB
Goal: determine how transcriptome of immune cells within the tumor microenvironment changes as a fun...
GSE85223: Hepatic differentiation of liver organoids
We analyzed gene expression profiles of self-organizing, multi-cellular, 3D liver organoids derived ...
GSE99258: Transcriptome analysis of C2C12 cells (WT and MYOD KO) overexpressing MUNC: proliferating and differentiating conditions.
To check global changes of genes expression correlating with induction of MUNC, we stably overexpres...
GSE79774: Programs for the persistence, vigilance and control of human CD8+ lung-resident memory T cells
Tissue-resident memory T-cells (TRM) mediate optimal protection against respiratory infections. Litt...
GSE147458: RNA-seq of dendritic cell subsets
comparison of cDC1, cDC2, mcDC transcriptome SOURCE: Cindy Audiger Univeristy of Montreal
GSE83927: Histone Deacetylase 3 Prepares Brown Adipose Tissue For Acute Thermogenic Challenge [RNA-Seq]
Brown adipose tissue (BAT) is a thermogenic organ that requires Uncoupling Protein 1 (UCP1) to dissi...
GSE82185: Allelic reprogramming of 3D chromatin architecture during early mammalian development
In mammals, chromatin organization undergoes drastic reprogramming after fertilization. However, the...
GSE85234: Inference of differentiation time for single cell transcriptomes using cell population reference data
To understand the molecular mechanisms of neural commitment from mouse ESCs, we selected very dense ...
GSE113765: A lineage commitment checkpoint in early ILC development [bulk RNA-seq]
Understanding how cellular function is imprinted during development requires the identification of f...
GSE80976: Effect of thermoneutral housing on non-alcoholic fatty liver disease in mice
Purpose: To identify the impact of thermoneutral housing as opposed to standard housing on gene expr...
GSE84068: Post-transcriptional 3UTR cleavage of mRNA transcripts generates thousands of stable uncapped autonomous RNA fragments
Here, using genome wide analysis, we demonstrate that canonical mRNA is processed post-transcription...
GSE100860: Monitoring Nivolumab binding as a method to clarify the residual therapeutic effects and to characterize the immune profile in antibody bound T cells in previously treated non-small cell lung cancer patients
The goal of this study is to evaluate immune profile in anti PD-1 antibody, Nivolumab, bound CD8 T c...
GSE81055: Differential expression analysis of Far2 knock-out and wild-type Mus musculus kidney RNA-seq data.
We identified the gene Far2, encoding the fatty acyl-coA reductase 2, to be associated with mesangia...
GSE83298: A computational systems approach for identification of synergistic specification genes facilitates lineage conversion to prostate tissue
We report that a computational systems approach can identify cell type specification genes that act ...
GSE89014: cFos-Sox9 Axis Reprograms Bone Marrow-derived Mesenchymal Stem Cells into Chondroblastic Osteosarcoma [RNA-seq]
The goal is to profile cFos binding sites in an p53 knockout mouse bone marrow-derived stem cells (m...
GSE136955: Differential gene expression during embryoid body (EB) formation of mouse embryonic stem cells when Hnrnpll was depleted
This work indicates Hnrnpll depletion mES cells cannot exit from pluripotency programme, showing emb...
GSE92581: Pluripotent stem cell disease modeling of GATA6 haploinsufficiency in human pancreatic development
To better understand molecular mechanisms of human pancreatic development associated with GATA6 hapl...
GSE150361: Single-cell RNA-seq of mouse epidermal or dermal samples
To identify differences between keratinocytes (w/o Pp6) and dermal dendritic cells, epidermal or der...
GSE76958: Epigenetic reprogramming enables the primordial germ cell-to-gonocyte transition (RNA-Seq)
Gametes are highly specialised cells that can give rise to the next generation through their ability...
GSE135880: EED-mediated histone methylation is critical for CNS myelination and remyelination by inhibiting WNT, BMP and senescence pathways
PRC2 catalyzes tri-methylation of histone H3 lysine residue K27 (H3K27me3), and then H3K27me3 recrui...
GSE86953: MLL-PTD and RUNX1-knockout cooperate to induce MDS phenotypes
The MLL-PTD mutation is found in patients with MDS and AML, and not in other hematological malignanc...
GSE131255: An extended PAXT connection is required for turnover of nuclear polyadenylated RNA in human cells
Recruitment of the human ribonucleolytic RNA exosome to nuclear polyadenylated (pA+) RNA is facilita...
GSE97270: Genome-wide identification and expression profiling of long non-coding RNAs in the auditory and vestibular systems
Mammalian genomes are highly complex and can be regulated at multiple levels, often imposed by a cla...
GSE141206: LIGHT/LTR signaling regulates self-renewal and differentiation of hematopoietic and leukemia stem cells
Purpose: The goal of this study is to compare NGS-derived transcriptome profiling (RNA-seq) of Ltbr-...
GSE95513: Identification of differential expressed genes of JQ1 or JQ1+Bortezomib in colorectal cancer cells
The bromodomain and extra-terminal domain inhibitors (BETi) are promising epigenetic drugs for the t...
GSE76183: Response to ibrutinib treatment in an E-TCL1 mouse model of CLL harboring a p53 alteration
Deletion of the short arm of chromosome 17 (17p-) is one of the most critical genetic variants used ...
GSE96680: Temperature adaptation effects on BAT metabolism
We are reporting here the effects of adaptation to different ambient temperatures in the whole genom...
GSE119901: The acute myeloid leukemia associated AML1-ETO fusion protein alters the transcriptome and cellular progression in a single-oncogene expressing in vitro induced pluripotent stem cell based granulocyte differentiation model
Here we describe the development and characterization of an induced pluripotent stem cell (iPSC) sys...
GSE78730: Toxic gain of function from mutant FUS protein is crucial to trigger cell autonomous motor neuron loss
FUS is an RNA-binding protein involved in amyotrophic lateral sclerosis (ALS) and frontotemporal dem...
GSE76184: Single cell transcriptome dynamics and subpopulation heterogeneity in radiation treated recurrent glioma
Radiation is the frontline treatment for malignant gliomas. Intra-tumoral heterogeneity has been pr...
GSE85214: MicroRNAs underlie genome-wide transcriptome and translatome regulation in asthma as revealed by Frac-seq (RNA-Seq)
Transcription and translation correlate poorly, as mRNA undergoes multiple regulatory steps such as ...
GSE147114: Human umbilical cord tissue is a robust source for mesenchymal stem cells with enhanced myogenic differentiation potential compared to cord blood
We report that mesenchymal stem cells isolated from umbilical cord tissue differentiate more robustl...
GSE85969: Bi-allelic Alteration and Dysregulation of the Hippo Pathway in Mucinous Tubular and Spindle Cell Carcinoma of the Kidney
Mucinous tubular and spindle cell carcinoma (MTSCC) is a relatively rare subtype of renal cell carci...
GSE77681: C9orf72 is required for proper macrophage and microglial function in mice
Expansions of a hexanucleotide repeat (GGGGCC) in the noncoding region of the C9orf72 gene are the m...
GSE144947: RNA sequencing of adult cardiomyocyte cyclin C deletion
The goal of this study was to identify differentially expressed genes in hearts with cardiomyoycte d...
GSE85243: Epigenome maps of time-resolved monocyte to macrophage differentiation and innate immune memory (RNA-Seq)
Innate immune memory is the phenomenon whereby innate immune cells such as monocytes or macrophages ...
GSE104853: MicroRNA-125a-5p overexpression in human macrophages
Systemic juvenile idiopathic arthritis (SJIA) is a severe childhood arthropathy with features of aut...
GSE99291: Alcohol feeding promotes colonic permeability and changes in colonic organoid stem cell fate
Alcohol increases intestinal permeability to pro-inflammatory microbial products including endotoxin...
GSE82022: Cerebral Organoids Recapitulate Epigenomic Signatures of the Human Fetal Brain
Organoids derived from human pluripotent stem cells recapitulate the early three-dimensional organiz...
GSE123880: Differential gene expression in strital and cerebellar tissues from wildtype C57Bl/6 and Thap1 conditional knockout mice
RNA-seq study comparing gene expression in wildtype and nervous system specific Thap1 knock out mic...
GSE84504: Modeling Trilateral Retinoblastoma using Human Embryonic Stem Cells
Human embryonic stem cells (hESCs) provide a platform for understanding mechanisms underlying diseas...
GSE86824: RNA Sequencing of mouse Purkinje cells across postnatal development
We analyzed Purkinje cell transcriptome dynamics in the developing mouse cerebellum during the first...
GSE129497: Toll-like receptor signaling rewires macrophage metabolism and promotes histone acetylation via ATP-citrate lyase
TLR activation induces inflammatory responses in macrophages by activating temporally defined transc...
GSE149524: Single Cell RNA-sequencing analysis of the juvenile and embryonic mouse enteric nervous system (ENS) of the small intestine
The study aimed to make a molecular definition of myenteric neuron classes in the mouse small intest...
GSE79859: RNA expression analysis of neuroblastoma cell lines treated with epigenetic drugs
The impact of drugs inhibiting DNA methylation (5-aza-2'-deoxycytodine, DAC) and EZH2 (EPZ-6438) on ...
GSE134554: Next Generation Sequencing Facilitates Quantitative Analysis of NC and miR-200ba KD Mice MOE Transcriptomes
In order to explore the underlying molecular mechanisms of the impaired olfactory behaviors demonstr...
GSE101470: Critical functions for STAT5 tetramers in the maturation and survival of natural killer cells
Interleukin-15 (IL-15) is essential for the development and maintenance of natural killer (NK) cells...
GSE94602: Transcriptomic (RNAseq) analysis of reovirus-induced host responses in mesenteric lymph node of interferon alpha/beta receptor (IFNabR) knockout and WT mouse.
Analysis of reovirus-induced host responses at the level of gene expression. Results provide insight...
GSE147738: Gene expression in matched primary and liver metastases
We profiled primary colon cancer and liver metastatic tumours from two patients. SOURCE: Hani Goodar...
GSE76190: TNF and CD28 signaling play unique but complementary roles in the systemic recruitment of innate immune cells after Staphylococcus aureus enterotoxin A inhalation
Staphylococcus aureus enterotoxins cause debilitating systemic inflammatory responses, but how they ...
GSE89018: Cry2 and Fbxl3 promote circadian destruction of c-Myc
Examination of gene expression changes caused by genetic deletion of Cry2 in MEFs with samples colle...
GSE81198: Expression data of intestinal epithelial isolates from rectosigmoid tissue in HIV-infected and control patients.
Background: Prior analyses of mRNA expression in intestinal tissue as related to HIV cohorts has bee...
GSE99412: Elucidating the role of UCP1 and FGF21 for metabolic homeostasis in the cold
Global RNA sequencing analysis of the hypothalamus, BAT, inguinal WAT and muscle of long-term cold ...
GSE76291: Polycomb dysregulation in gliomagenesis targets a Zfp423-dependent differentiation network [RNA-Seq]
Malignant gliomas constitute one of the most significant areas of unmet medical need, due to the inv...
GSE85263: Profiling gene expression of the host response to an irradiated sporozoite immunization and Plasmodium vivax malaria challenge
We report an initial understanding of the modular immune response to a P. vivax malaria challenge af...
GSE153222: Temporal Transcriptomic Landscape of Interorgan Crosstalk between Islets and Liver in High-fat Diet Model
Purpose: Hyperinsulinemia and insulin resistance are co-existing characteristics of type 2 diabetes,...
GSE83332: Epidermis-specific ribosome profiling to describe the translational landscape of SOX2
SOX2 signalling is required SCC initiation and maintenance. Ribosome profiling was used to describe ...
GSE90851: Predominant TRUB1-dependent pseudouridylation of mammalian mRNA via a predictable and conserved code
In this accession we provide pseudouridylation measurements upon knockdown and/or overexpression thr...
GSE98724: Transcription factor-dependent anti-repressive mammalian enhancers exclude H3K27me3 from extended genomic domains
To define and assess the role of transcription factor binding at villus enhancers, we performed ATAC...
GSE84699: Transcriptome targets of PCBP1 in T cells
Iron deposition is frequently observed in human autoinflammatory diseases, such as in the brain of p...
GSE141364: Transcriptome wide analysis of differential gene expression and polyadenylation site usages caused by inhibition of CDK12 and/or CDK13 in MV4;11 cells (3 Quant-seq)
We used 3' RNA-Seq to determine the effects of analog senstive CDK12, CDK13 and dual inhibition on g...
GSE85271: KANK1 function as tumor suppressor gene in human malignant peripheral nerve sheathing tumors (MPNST)
The purpose of this study is to identify expression differences between untreated and Doxycycline tr...
GSE101707: Total RNA expression profiling in mesenteric arteries of mice infused or not with angiotensin II for 7 and 14 days
We used next-generation sequencing (NGS) to profile total RNA in small arteries of mice infused or n...
GSE87448: Activation of Notch1 synergizes with multiple pathways in promoting castration-resistant prostate cancer
Chronic activation of Notch1 synergizes with multiple oncogenic pathways altered in early prostate c...
GSE85983: Identification of intermediate transcriptome states and synergistic effects of Isl1 in Atoh1-mediated cochlear hair cell conversion
Ectopic expression of Atoh1 in non-sensory supporting cells (SCs) in mouse cochleae induces their co...
GSE134369: RNA-seq analysis of human KMT2A rearranged MV4;11 AML cell line treated with DOT1L and/or EZH2 inhibitor
The histone methyltransferases DOT1L (H3K79me1,2,3 KMT, "activating" chromatin mark) and EZH2 (H3K27...
GSE81214: RNA-seq of hESC samples upon loss of UPF1.
Nonsense-mediated RNA decay (NMD) is a highly conserved pathway that selectively degrades specific s...
GSE104176: The medium-chain free fatty acid receptor GPR84 is expressed in pro-inflammatory macrophages and mediates inflammatory sequelae in endometriosis
RNA sequencing was used to investigate the transcriptomic response of primary human macrophages to s...
GSE76215: Loss of mouse P2Y6 nucleotide receptor is associated with physiological macrocardia and amplified pathological cardiac hypertrophy
The study of the mechanisms leading to cardiac hypertrophy is essential to better understand cardiac...
GSE111543: Invasive non-typhoidal Salmonella dysregulates the repertoire of dendritic cell responses to intracellular and extracellular stimuli [scRNA-seq]
Non-typhoidal Salmonella (NTS) are among of the most important food-borne pathogens. Recently, a hig...
GSE92301: Gene expression profile of hedgehog-responsive stromal cells in mouse PB-MYC prostate tumor and normal prostate
We report the application of RNA-sequencing for high-throughput profiling of gene expression in hedg...
GSE83338: mRNA profiling of liver-specific RORa KO mouse liver
The retinoic acid receptor-related orphan receptor a (RORa) is a member of the NR1 subfamily of orph...
GSE84477: Transcriptomic Differences Associated with TSC2 Gene Expression Loss in Lymphangioleiomyomatosis [mouse cells]
Pulmonary Lymphangioleiomyomatosis (LAM), a rare lung disease that affects predominantly women, is c...
GSE102288: Gene responses to RTS,S malaria vaccination in controlled human malaria study
Identification of gene signatures that are associated with protection in RTS,S malaria vaccination s...
GSE95540: Integrin-b4 identifies cancer stem cell-enriched populations of partially mesenchymal carcinoma cells
We report the gene expression profiles of normal epithelial and carcinoma cell populations that diff...
GSE96679: Temperature adaptation effects on BAT metabolism in BAT specific Akt2 knockout mice
We are reporting here the effects of adaptation to different ambient temperatures in the whole genom...
GSE97848: Deconstructive SCNT reveals heterogeneity within Treg population [bulk]
Thymic-derived Treg cells consist of heterogeneous subsets with different characteristics and develo...
GSE100785: RNA-Seq on the effect of VitaminD on colonic and tumor organoids
Stem cell enriched cultures are generated from primary cultures of colorectal cancer patients. Organ...
GSE77967: A highly sensitive and robust method for genome-wide 5hmC profiling of rare cell populations
Investigations of 5-hydroxymethylcytosine (5hmC) in biologically and clinically samples and models w...
GSE155551: Thipstrepton activated tumor-associated macrophage
Purpose: To understand the effects of compound thipstrepton on tumor-associated macrophage SOURCE: G...
GSE148159: inflammatory response to IL-1b in WT, LDHA KO, NAMPT KO, NFKBIZ KO and FX11 treated chondrocytes
Our goal is to study the impacts of IL-1b treatment on chondrocyte physiology. Furthermore, we knock...
GSE106520: RNA-seq in neutrophils from patients with intracranial aneurysms
In this study, we explored transcriptional differences in human neutrophils from patients with intra...
GSE84492: RNA-seq analysis of Kdm5c deficient brains in mice
Kdm5c is an X-linked histone demethylase that acts as a transcriptional repressor via histone H3 lys...
GSE85297: CD133+ vs. CD133- cells in GBML8, a primary glioblastoma tumorsphere culture
CD133+ and CD133- cells were FACS islated from GBML8 cells to find gene signatures upregulated in ca...
GSE84861: Effects of the expression of a samble mutant of Kif1-Binding Protein (KBP) on the transcriptome of self-renewing ES cells
Mouse ES cells were stably transduced with a lentivirus expressing either wild-type KBP or the stabl...
GSE85037: Antibiotics induce polarization of pleural macrophages to M2-like phenotype in patients with tuberculous pleuritis
Purpose: To determine whether and how pleural macrophages change in phenotype, transcription and fun...
GSE83337: Genetic lineage tracing defines myofibroblast origin and function in the injured heart
Cardiac fibroblasts convert to myofibroblasts with injury to mediate healing after acute myocardial ...
GSE111417: RNAseq of germinal center B cells from Blimp-1-GFP reporter mice with an ablatable TfH compartment.
RNAseq of germinal center B cells (B220+IgDlowCD95+GL7+) with different Blimp-1-GFP reporter level i...
GSE93167: Conservation and innovation in the DUX4-family gene network [MMH6 RNA-Seq]
Facioscapulohumeral dystrophy (FSHD; OMIM #158900, #158901) is caused by mis-expression of the DUX4 ...
GSE86903 (human): Comparative principles of DNA methylation reprogramming during human and mouse in vitro primordial germ cell specification [Mouse and Human RNA-seq and BS-seq]
Primordial germ cell (PGC) development is characterized by global epigenetic remodeling, which reset...
GSE93877: RNA-Seq in SMARCD2 k/d NB4 cells with/without ATRA differentiation
We report differential gene expression in the human AML cell line NB4 that can be partially differen...
GSE85308: Genome-wide transcriptome analyses by RNAseq to determine the change that happens in the peripheral taste system with age.
To understand the mechanisms that regulate the renewal and maintenance of taste cells we performed R...
GSE94967: Mouse Liver tumor SRC-2
We studied the effects of loss of SRC-2 in MYC driven mouse liver tumorigenesis SOURCE: Shruthy Sure...
GSE86817: Nono, a novel bivalent domain factor, regulates Erk signaling and mouse embryonic stem cell pluripotency [RNA-Seq]
Here we report that Nono instead functions as a chromatin regulator cooperating with Erk to regulate...
GSE98080: Genome-wide analysis of gene expression in mouse embryonic stem cells when individual glycogen synthase kinase 3 (GSK3) paralog is inhibited via chemical genetic approach
Analysis of downstream targets when individual GSK3 paralog is inhibited at gene expression level. T...
GSE150683: T47D cells; Anastrozole RNA-seq
The objective of the RNAseq is to identify genes regulated by anastrozole, and the difference in gen...
GSE99641: Multiplex Enhancer Interference Reveals Collaborative Control of Gene Regulation by Estrogen Receptor Alpha Bound Enhancers [RNA-Seq]
Multiple regulatory regions have the potential to regulate a single gene, yet how these elements com...
GSE89633: Three Distinct Cell Types Express Extracellular Matrix Proteins In Different Niches During Skeletal Muscle Fibrosis
Tissue extracellular matrix provides structural support and creates unique niches for resident cells...