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Sequencing-based assays page 111
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GSE150301: Gene expression patterns of tumor-infiltrating CD8 T cells according to the CD137 expression in human metastatic ovarian cancer
We report the differences of gene expression pattern of tumor-infiltrating CD8 T cells between CD137...
GSE151723: Mapping the effects of developmental lead (Pb) exposure on the hippocampus with single cell analysis
Lead (Pb) exposure is ubiquitous with permanent neurodevelopmental effects. The hippocampus brain re...
GSE153137: Next Generation Sequencing Facilitates Quantitative Analysis of Wild Type and Mettl5-/- embryonic stem cells Transcriptomes
Purpose: Next-generation sequencing (NGS) has revolutionized systems-based analysis of cellular path...
GSE137762: Cellular and molecular changes of brain metastases-associated myeloid cells during disease progression and therapeutic response
Brain metastasis (BrM) represents a challenging clinical issue. The most common treatment options ar...
GSE147477: SWI/SNF complex mutations promote thyroid tumor progression and resistance to redifferentiation therapy (RNA-seq, Fig2)
Recurrent mutations in genes encoding subunits of the SWI/SNF chromatin remodeling complex occur com...
GSE146549: Analysis of transcriptomic responses of genotoxic stress in human HepaRG hepatocarcinoma cells
Purpose: Toxicogenomics analyses may provide information about DNA-damaging properties of test compo...
GSE111009: Cell type-dependent control of enhancer and p53 transcriptional activity by p63
In this work, we demonstrate that the p53-induced transcriptome is dependent on pre-establishment of...
GSE150305: Memory-like HCV-specific CD8+ T cells retain a chronic scar after cure of chronic HCV infection
Investigation of phenotypical changes between exhausted HCV-specific CD8+ T cells during chronic inf...
GSE143787: Differential contribution of bone marrow derived-monocytes to the lung tissue resident alveolar macrophages and persistent lung inflammation with chronic air pollution exposure
Chronic exposure to ambient particulate matter <2.5 (PM2.5) has been linked to cardiopulmonary disea...
GSE152172: Maternal Oxycodone Treatment Causes Pathophysiological Changes in the Mouse Placenta
Purpose: The goals of this study are to examine how maternal exposure to oxycodone affects the globa...
GSE146639: Bulk and single cell sequencing (bc-Smart-seq2 and 10XGenomics) of human microglia from post mortem AD CNS tissue
Microglia are the tissue-resident macrophages of the central nervous system (CNS). Recent studies ba...
GSE137786 (mouse): Molecular determinants of nephron vascular specialization in the kidney
The kidney vasculature is specialized to filter waste products from the blood, regulate blood pressu...
GSE137909: Characterizing pancreatic -cell heterogeneity in the streptozotocin model by single-cell transcriptomic analysis
Objectives; The streptozotocin (STZ) model is widely used in diabetes research. However, the cellula...
GSE154991: Profiling primary osteoblast transcriptomes during differentiation
The goal of this study is to compare next-generation sequencing-derived osteoblast transcriptome pro...
GSE138755: PPARaDN KP vs PPARaDN KPG1 tumours
Glucose transporters are the first and rate-limiting step for cellular glucose usage, which is often...
GSE153534: Aortic smooth muscle cell phenotype modulation during Marfan syndrome aneurysm formation
We report dynamic temporal and spatial smooth muscle cell phenotype modulation using aortic single c...
GSE147832 (mouse): Cell type- and replication stage-specific influenza virus responses in vivo
We used two different influenza viruses lacking either PB1 or HA to differentiate the antiviral resp...
GSE151741: Asymmetrically-substituted quadruplex-binding napththalene diimides showing potent activity in models for pancreatic cancer
Targeting quadruplexes in cancer genes and pathways by a novel class of asymmetrically-substituted n...
GSE140919: Defining Murine Monocyte Differentiation into Colonic and Ileal Macrophages
Monocytes are circulating short-lived macrophage precursors that are recruited on demand from the bl...
GSE147449: MACE RNA Sequencing Analysis of Conjunctival Squamous Cell Carcinoma and Papilloma Using Formalin-Fixed Paraffin-Embedded Tumor Tissue
The aim of this study was to elucidate the molecular mediators of conjunctival squamous cell carcino...
GSE146604: Next Generation Sequencing identifies differential genes regulated by FTSJ1 overexpression
We report the application of RNA-sequencing for high-throughput profiling of transcriptomes in PC9 c...
GSE153152: Characterization of mature IL18R- and IL18R+ Tregs in the thymus
Using Foxp3.RFP Rag.GFP reporter mice, we characterized differences between the IL18R- and the IL18...
GSE151193: Chromatin looping links target genes with genetic risk loci for dermatological traits
Chromatin looping between regulatory elements and gene promoters presents a potential mechanism wher...
GSE151334: Single cell profiling of total RNA using Smart-seq-total
We describe Smart-seq-total, a method capable of assaying a broad spectrum of coding and non-coding ...
GSE140903: Paternal nicotine enhances fear memory, reduces nicotine administration and alters hippocampal genetic and neural function in offspring [RNA-seq]
We tested the effects of chronic paternal nicotine exposure in C57BL6/J mice on hippocampal RNA expr...
GSE147435: Impaired transcriptional profile in the hippocampus following loss of Kdm5a
KDM5A encodes a histone lysine demethylase that removes methyl groups from lysine 4 of histone H3, r...
GSE138878: Regulating lineage progression of cortical neural stem cells by extrinsic signaling molecule SHH [bulk RNA-seq]
Purpose:To asses changes in gene expression profiles from the P0 wild type littermate controls corte...
GSE145811: Chemical genetics strategy to profile kinase target engagement reveals role of FES in neutrophil phagocytosis via SYK activation
Comparative transcriptome profiling reveals that wild-type and CRISPR/Cas9-engineered FES_S700C HL-6...
GSE145840: Metabolic Effects of AirPollution ExposureandReversibility
In this study, we modeled earlylifeair pollutionexposure using C57BL/6J male mice on a controlled ch...
GSE146687: Evaluation of Eribulin Combined with Irinotecan for Treatment of Pediatric Cancer Xenografts
Eribulin, irinotecan, and the combination were studied in ES4 xenograft model. RNAs from xenograft t...
GSE138006: Cohesin Members Stag1 and Stag2 Display Distinct Roles in Chromatin Accessibility and Topological Control of HSC Self-Renewal and Differentiation [RNA_3populations_LSK_GMP_CFUE]
Transcriptional regulators, including the cohesin complex member STAG2, are recurrently mutated in c...
GSE154304: Runx-meRunx-mediated gene regulation during thymic T cell development and stage specific genomic interactions of Runx3
Runx transcription factors play pivotal roles in the development of hematopoietic cells, including T...
GSE152981: GMM-Demux: sample demultiplexing, multiplet detection, experiment planning and novel cell type verification in single cell sequencing.
Identifying and removing multiplets is essential to improving the scalability and the reliability of...
GSE137927: Single-cell mRNA analysis of colon phagocyte heterogeneity identifies two major macrophage developmental pathways
Tissue macrophages (MPs) develop distinctive functions due to unique transcriptional programs driven...
GSE146644: Gene expression profiling of the vomeronasal organs in mice selectively bred for high voluntary wheel running activity and non-selected controls
To examine the impact of selective breeding for voluntary wheel running activity on gene expression ...
GSE147907: Anatomical locations of CD8+ memory T cells determine distinct mechanisms of reactivation II
Temporal transcriptome profiling of TCR-reactivated (P14) and bystander-reactivated (OT-I) memory T ...
GSE148058: An integrated multi-omics approach identifies the landscape of interferon-a-mediated responses of human pancreatic beta cells [RNA-seq 2]
Proinflammatory cytokines are important mediators of pancreatic beta cell dysfunction and demise in ...
GSE146619: Single-cell transcriptomic analysis of adult mouse pituitary reveals sexual dimorphism and physiologic demand-induced cellular plasticity
The anterior pituitary gland drives a set of highly conserved physiologic processes in mammalian spe...
GSE139107: Cell profiling of acute kidney injury reveals conserved cellular responses to injury
After acute kidney injury (AKI), patients either recover or alternatively develop fibrosis and chron...
GSE147457: Single Cell RNA-Sequencing of Human Limb Skeletal Muscle across Development and Myogenic Culture from Pluripotent Stem Cells
The developmental trajectory of human skeletal myogenesis and the transition between progenitor and ...
GSE150026: Effects of Tesamorelin on Hepatic Transcriptomic Signatures in HIV-Associated NAFLD
Nonalcoholic fatty liver disease (NAFLD) is a common comorbidity among people living with HIV with a...
GSE148180: RNA-seq: Analysis of differential gene expression between HD and DM1 patient lymphoblastoid cell lines (LCLs) compared to unaffected LCLs.
Transcriptome from HD, DM1, and unaffected LCLs. SOURCE: Gustavo,Agustín,Ruiz Buendía University of ...
GSE145726: In vitro capture and characterization of embryonic rosette-stage pluripotency between naive and primed states (II, single-cell RNA-Seq data)
Naive pluripotent cells in the implanting mouse blastocyst generate a rosette structure before under...
GSE154911: Host immune response against the emerging fungal pathogen Candida auris: transcriptional and functional insights
Candida auris is amongst the most important emerging fungal pathogens, yet mechanistic insights in i...
GSE146660: Uncovering Modifier Genes of X-linked Alport Syndrome Using a Novel Multi-parent Mouse Model
RNAseq of mouse kidney RNA from Col4a5 muntant mice crossed with diversity ourbred mice to find modi...
GSE138825: Tissue-specific transcriptomic changes associated with AmBisome treatment of mice with experimental visceral leishmaniasis
RNAseq of mouse liver and spleen samples infected with M. bovis treated with ambisome; Liposomal amp...
GSE138872: Transcriptomic analysis (RNAseq) of tumour-exposed Tregs from IL33 genetical deficient mice
Our purpose was to analyse the transcriptomic profile of Tregs from tumor-draining lymph nodes of me...
GSE143836: Neuron-Derived Estrogen is Critical for Astrocyte Activation and Neuroprotection of the Ischemic Brain
We examined the transcriptional changes modulated in ischemic brain of fore brain specific aromatase...
GSE150394: A1-Reactive Astrocytes and a loss of TREM2 are associated to an early state of pathology in a mouse model of Cerebral Amyloid Angiopathy
In this study, we dissect in detail the glial and immune responses associated to early stages of CAA...
GSE150071: Type 3 innate lymphoid cells direct goblet cell differentiation via the LT-LTR pathway during Listeria infection
As a specialized subset of intestinal epithelial cells (IECs), goblet cells (GCs) play an important ...
GSE154340: SMALL EXTRACELLULAR VESICLE REGULATION OF MITOCHONDRIAL DYNAMICS REPROGRAMS A HYPOXIC TUMOR MICROENVIRONMENT
The crosstalk between tumor cells and the adjacent normal epithelium contributes to cancer progressi...
GSE150364: Thyroid Hormone Receptor Beta Induces a Tumor Suppressive Program in Anaplastic Thyroid Cancer
The thyroid hormone receptor beta (TR), a key regulator of cellular growth and differentiation, is f...
GSE146659: RNA Sequencing Facilitates Quantitative Analysis of Wild Type and FAK-/- Wnt1 driven mammary tumor cell transcriptomes
We examined FAK deletion induced changes in various cellular processes and signalling pathways in an...
GSE139419: MEF2C hypofunction in neuronal and neuroimmune populations produces MEF2C haploinsufficiency syndrome behaviors in mice
Microdeletions of the MEF2C gene are linked to a syndromic form of autism termed MEF2C haploinsuffic...
GSE146503: Gene expression changes induced by hypomethylating agent, Azacitidine (AZA); IDH1 inhibitor, BAY1436032 (BAY) and sequential and simultaneous combination of BAY and AZA in in vitro treated human (CD45+) cells isolated from the bone marrow of IDH1mut
Mutations in the enzymes IDH1 and IDH2 have been identified in a wide variety of tumors like glioma,...
GSE139585: A Uromodulin mutation resulting in kidney fibrosis due to activation of the innate immune system through mononuclear phagocyte ATF4/integrated stress response signaling
Background: Uromodulin (Tamm-Horsfall) protein is secreted by the thick ascending limb into urine an...
GSE150365: Transcriptome analysis of C2C12 myoblasts with mutations in LMNA gene
Mutations in LMNA gene cause laminopathies in human. Mostly, laminopathies alter skeletal muscle tis...
GSE151763: A Treg cell Notch4-GDF15 Axis Licenses Tissue Inflammation in Asthma
Elucidating the mechanisms that sustain asthmatic inflammation is critical for precision therapies. ...
GSE148123: Transient Nodal signalling in left precursors coordinates opposed asymmetries shaping the heart loop
The secreted factor Nodal has been shown to be a major left determinant. Although it is associated w...
GSE153491: EZH2-GATA6 axis in Pancreatic ductal adenocarcinoma [RNA-Seq]
We conducted RNA-seq experiments to investigate the role of EZH2 in Pancreatic ductal adenocarcinoma...
GSE148066: Integration of Innate 1 Immune Signaling by Caspase-8-Mediated Cleavage of N4BP1 (NGS2979 RNA-seq)
Human mutations in the death receptor Fas or its ligand FasL cause autoimmune lymphoproliferative sy...
GSE140838: Imprinted maternally-expressed microRNAs in induced neurons
Imprinted genes with parental-biased allelic expression are enriched in pathways regulating energy h...
GSE153158: RNA sequencing of NF-kB knockout (KO) U937 cells
Transcription factors of NF-kB family play central roles in inflammatory responses. However, most of...
GSE151709: Single-cell RNA sequencing of olfactory bulb dopaminergic neurons
Here we performed single cell RNA sequencing of manually sorted olfactory bulb dopaminergic neurons ...
GSE148138: Identification of gene expression changes in MEF cell lines with a targeted MDMX mutation that disrupts binding to CK1-alpha kinase
The goal of this experiment is to identify genes differentially expressed in MEF cell lines with a t...
GSE146123: Dental cell type atlas reveals new stem and differentiated cell types in mouse and human teeth
Reconstruction and engineering of human teeth are the tasks of utmost importance. Here we introduce ...
GSE148050: Endogenous suppression of WNT signalling in human embryonic stem cells leads to low differentiation propensity towards definitive endoderm
We compared a transcriptome of hESC line VUB04 which has a low differentiation propensity towards de...
GSE153198: Combinatorial transcriptional profiling of mouse and human enteric neurons identifies shared and disparate subtypes in situ [Human Enteric Ganglia]
The data provided here were used to generate a comprehensive transcriptome atlas for the human myent...
GSE146688: Argonaute Binding within 3-Untranslated Regions Does Not Predict Gene Repression
Despite two decades of study, the full scope of RNAi in mammalian cells has remained obscure. Here w...
GSE148053: Total RNA sequencing of postnatal male germ cells
We report the whole-transcriptome profile with total RNA sequencing of postnatal male germ cells.; H...
GSE140135: RNAseq for Nestin+ bone marrow stromal cells in normal and MLL-AF9 mice
Cumulative evidence points out to the importance of the bone microenvironment for leukaemic developm...
GSE153226: Transcriptional profiling for lung tissue-resident helper T cell and spleen follicular T cells
We reported hybrid CD4+ T cell population following influenza viru infection. The hybrid CD4+ T cell...
GSE146629: Role of Rnf40-dependent histone monoubiquitination in peripheral nervous system myelination [RNA-Seq]
To address the role of monoubiquitination of histone H2B at lysine 120 (H2Bub1), we inactivated the ...
GSE150096: Gene expression profiles of primary LN3 T-ALL cells and wild-type T-lineage cells from the thymus and spleen
T cell acute lymphoblastic leukemia (T-ALL) develops spontaneously in the thymus of LN3 mice and inf...
GSE148149: RNA sequencing of visceral fat tissue and E0771 tumor tissue harvested from WT and fat specific PD-L1 KO host
To study the transcriptome differences of tumor transplanted into WT and KO host, E0771 tumors harve...
GSE154261: Identification of Differential Tumor Subtypes of T1 Bladder Cancer
Stage T1 bladder cancers have the highest progression and recurrence rates of all non-muscle invasiv...
GSE146673: Mutant huntingtin stalls ribosomes and represses protein synthesis independent of Fragile X mental retardation protein [RNA-seq]
Huntingtin (Htt) and its poly-Q expanded form, mHtt, causes Huntington disease (HD) and promotes rib...
GSE154961: ZNF410 uniquely activates the NuRD component CHD4 to silence fetal hemoglobin expression [RNA-Seq]
Metazoan transcription factors typically regulate large numbers of genes. Here we identify via a CRI...
GSE140915: Type II lung cells in young mice exposed to differing levels of oxygen
Alveolar epithelial type 2 (AT2) cells are an adult lung stem cell. Oxidative stress, mitogens, and ...
GSE148200: Effects of a quadruplex-binding compound on gemcitabine resistant pancreatic cancer cells
Changes in gene expression in a pancreatic cancer cell line and a chemoresistant line on treating wi...
GSE153540: Transcriptional profiling of mouse prefrontal cortex and nucleus accumbens under chronic jet lag
Chronic jet lag (CJL) induced by shifting light-dark cycles repeatedly is a commonly used protocol t...
GSE153191: Comparison of microfludic and static culture of human intestinal organoids in normal and inflammatory conditions
Introduction: Inflammatory bowel disease (IBD) is a complex multi-factorial disease for which physio...
GSE157453: T cell receptor is required for differentiation but not maintenance of intestinal CD4+ intraepithelial lymphocytes
The gut epithelium is populated by intraepithelial lymphocytes (IELs), a heterogeneous T cell popula...
GSE150220: Effects of Pten knockout in dystrophic skeletal muscles of mdx mouse
Analysis of skeletal muscles with specific knockout (KO) of Phosphatase and tensin homolog (Pten) ge...
GSE151681: The CBP KIX domain regulates long-term memory and circadian activity
Purpose: We investigated the function of the CBP KIX domain in hippocampal memory and gene expressio...
GSE71689: Integrated analysis of MLL-AF9 AML patients and model leukemias highlights RET and other novel therapeutic targets [RNA-Seq_normal]
Next generation DNA sequencing of acute myeloid leukemia (AML) patient samples has revealed novel re...
GSE157522: CVB3 infected fetal mice
Difference in RNA sequencing in CVB3 infected and control mice fetuses SOURCE: Vipul Sharma (v.sharm...
GSE150155: Quantitative Analysis of Wild Type and CISH-/- induced pluripotent stem cell derived NK cells (iPSC-NK) Transcriptomes
We developed human CISH-knockout (CISH-/-) NK cells using an induced pluripotent stem cell-derived N...
GSE148444: Glucocorticoid Receptors are Required Effectors of TGFb1-Induced p38 MAPK Signaling to Advanced Cancer Phenotypes in Triple Negative Breast Cancer
Altered signaling pathways typify breast cancer and serve as direct inputs to steroid hormone recept...
GSE147687: Insulin-Induced Serine 22 Phosphorylation of Retinoid X Receptor Alpha Is Dispensable For Adipogenesis in Brown Adipocytes
Insulin action initiates a series of phosphorylation events regulating cellular differentiation, gro...
GSE147492: Notch and TLR signaling coordinate monocyte cell fate and inflammation
We studied the role of Notch2 signaling in Ly6Chi monocyte cell fate during TLR7-induced acute infla...
GSE139146: RNA Sequencing Allows for Differential Gene Expression Analysis of Infrequently Dividing and Frequently Dividing (IDC/FDC) Oral Epithelial Stem Cells
Purpose: Next-generation sequencing (NGS) has revolutionized systems-based analysis of cellular path...
GSE148535: The early local and systemic Type I interferon responses to ultraviolet B light exposure are cGAS dependent.
Most systemic lupus erythematosus (SLE) patients are photosensitive and ultraviolet B light (UVB) ex...
GSE148150: NSD1-deposited H3K36me2 directs de novo methylation in the mouse male germline and counteracts Polycomb-associated silencing
While de novo DNA methylation (DNAme) in mammalian germ cells is dependent upon DNMT3A and DNMT3L, o...
GSE148441: Notch2 complements Notch1 to mediate inductive signaling that initiates early T cell development
Notch signaling is the dominant intercellular signaling input during the earliest stages of T cell d...
GSE139523: The serine hydroxymethyltransferase-2 (SHMT2) initiates lymphoma development through epigenetic tumor suppressor silencing
Cancer cells are thought to adapt their metabolic activities to support growth and proliferation. Ho...
GSE150120: Transcriptom profiling of in vitro induced exhauted CD8+ T cells
By comparing transcriptome profiling of in vitro repeated stimulated cells with without stimulation ...
GSE150400: The WDR5 WIN site interactome
The WIN site of WDR5 is a druggable pocket that is crucial for WDR5 protein function and carries the...
GSE153025: Leukemia cell of origin influences apoptotic priming and sensitivity to LSD1 inhibition
Previous studies have established that the cell of origin of oncogenic transformation is a determina...
GSE153248: MPC EVs onto Myotubes
Extracellular vesicles (EVs) from proliferating primary myogenic progenitor cells (MPCs) were incuba...