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Sequencing-based assays (Page 132)
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GSE104379: Aging Human Hematopoietic Stem Cells Manifest Profound Epigenetic Reprogramming of Enhancers That May Predispose to Leukemia
Aging is associated with functional decline of hematopoietic stem cells (HSC) as well as an increase...
GSE117627: Intrahepatic MAIT cell gene expression revealed by RNA-seq
RNA-seq was carried out as described by Simone Picelli et al. with minor modifications (Genome Res 2...
GSE113952: RNAseq of HEK293 cells after Chtop knockdown
During gene expression, RNA export factors are mainly known for driving nucleocytoplasmic transport....
GSE106169: Polyol pathway links glucose metabolism to the aggressiveness of cancer cells
Cancer cells alter their metabolism to support their malignant properties. By transcriptomic analysi...
GSE106122: N6-methyladenosine mRNA marking promotes selective translation of regulons required for human erythropoiesis [MeRIP-seq]
Many of the regulatory features governing erythrocyte specification, maturation, and associated diso...
GSE107991: A modular transcriptional signature identifies phenotypic heterogeneity of human tuberculosis infection [Berry_London]
Whole blood transcriptional signatures distinguishing patients with active tuberculosis from asympto...
GSE114033: Transcriptional responses in whole blood of healthy adult volunteers experimentally challenged with S. Paratyphi
This studies describes the transcriptional response in whole blood derived from healthy adult volunt...
GSE106230: Peripheral whole blood mRNAs and lncRNAs expression analysis in eosinophilic asthmatics
Long non-coding RNA (lncRNA) plays roles in many diseases including asthma. Several lncRNAs function...
GSE106311: Human Sandhoff Disease Cerebral Organoids Exhibit Enlarged Size, Increased Cellular Proliferation, and Impaired Differentiation
Sandhoff disease, one of the GM2 gangliosidoses, is a lysosomal storage disorder characterized by th...
GSE127199: Single-cell RNA sequencing-based CRISPRi screening resolves molecular drivers of early human endoderm development [set 1]
Studies in vertebrates have outlined conserved molecular control of definitive endoderm (END) develo...
GSE111622: Progerin-induced transcriptional changes in Huntington's disease human pluripotent stem cells-derived neurons
Identification of transcriptional changes in Huntington's disease (HD) and normal (WT) human embryon...
GSE116957: Dengue virus-specific CD8 T cell subsets are associated with specialized gene expression profiles and TCR repertoires
Accumulating evidence demonstrates that CD8 T cells contribute to protection from severe DENV diseas...
GSE117632: N6-methyladenine DNA Modification in Glioblastoma [RNA-seq]
Genetic drivers of cancer can be dysregulated through epigenetic modifications of DNA. While the cri...
GSE107971: RNA sequencing of human bronchial epithelial cell transcriptomes after repopulation and differentiation on bronchial scaffolds from COPD patients and healthy donors
Chronic obstructive pulmonary disease (COPD) is a serious global health problem characterized by chr...
GSE112508: Optical stimulation of the FGF signaling pathway is sufficient to maintain human pluripotent stem cells
Stem cell fate is largely determined by a cell-signaling network and can be controlled by the supple...
GSE108013: Microenvironmental-derived Regulation of HIF-Signaling Drives Transcriptional Heterogeneity in Glioblastoma Multiforme
The evolving and highly heterogeneous nature of malignant brain tumors underlies their limited respo...
GSE107735: Hot-spot Mutations in RXRA Implicate Peroxisome Proliferator-Activated Receptors as Bladder Cancer Drivers
RXRA regulates transcription as part of a heterodimer with 14 other nuclear receptors, including the...
GSE109645: Xeno-free and Chemically Defined Human System for Culturing Human Epidermal Keratinocytes
Developing an effective xeno-free and defined system for human keratinocyte culture has been one of ...
GSE107785: Essential Roles of SETD7 as Transcriptional Activator and Co-regulator of H3K36me in Cardiac Lineage Commitment
Coordinated epigenome alteration is fundamental for cardiac development. However, the precise mechan...
GSE131574: Integrated analysis of H2A.Z isoforms reveals a complex interplay in gene regulation [WI38_siZ1-siZ2 RNA-seq]
The H2A.Z histone variant plays major roles in the control of gene expression. In human, H2A.Z is en...
GSE108023: Genome-wide association analysis identifies 13 novel susceptibility loci for Carpal Tunnel Syndrome
Carpal tunnel syndrome (CTS) is a common and disabling condition of the hand caused by entrapment of...
GSE108026: The SS18-SSX fusion oncoprotein hijacks BAF complex targeting and function to drive synovial sarcoma [RNA-Seq Cell]
Synovial sarcoma (SS) is defined by the hallmark SS18-SSX fusion oncoprotein, which renders BAF comp...
GSE110935 (human): The role of CFTR in islet function
Cystic fibrosis (CF)-related diabetes (CFRD) is an increasingly common and devastating comorbidity o...
GSE107748: A gene expression signature for NOTCH receptor activation
In many solid cancers and leukemias deregulation of the NOTCH signalling pathway is frequently obser...
GSE113113: Primary T cells from cutaneous T-cell lymphoma skin explants display an exhausted immune checkpoint profile
Cutaneous T-cell lymphoma (CTCL) develops from clonally expanded CD4+ T cells in a background of ch...
GSE110471: A Comparative Assessment of iPSC Derived Cardiomyocytes with Heart Tissues in Humans and Chimpanzees
To study regulatory differences between species, the field of comparative primate genomics has used ...
GSE107001: Group A Streptococcus M1T1 Intracellular Infection of Primary Tonsil Epithelial Cells Dampens Levels of Secreted IL-8 Through the Action of SpyCEP
Streptococcus pyogenes (Group A Streptococcus; GAS) commonly causes pharyngitis in children and adul...
GSE108029: Designer epigenome modifiers enable robust and sustained gene silencing in clinically relevant human cells [RNA-seq]
Targeted modulation of gene expression represents a valuable approach to understand the mechanisms g...
GSE107230: Patient-iPSC-derived kidney organoids show functional validation of a ciliopathic renal phenotype
Purpose: A proof of concept study examining the disease modelling capabilities of patient iPSC deriv...
GSE107163: snRNAs as regulators of alternative splicing
In this study we investigated snRNA-mediated modulation of pre-mRNA splicing across the human transc...
GSE130580: Epigenetic reprogramming of immune cells in women with PCOS impact genes controlling reproductive function [RNAseq]
Transcriptomic and genome-wide DNA methylation was performed on T helper cells using RNA-sequencing ...
GSE138197: Alternative polyadenylation mediates genetic regulation of gene expression
Little is known about co-transcriptional or post-transcriptional regulatory mechanisms linking nonco...
GSE107794: Single cell RNA sequencing of kidney tubuloids and the tissue that the tubuloids were derived from
Adult Stem Cell (ASC )-derived organoids are 3D epithelial structures that recapitulate essential as...
GSE109535: scFTD-seq: freeze-thaw lysis based, portable approach toward highly distributed single-cell 3 mRNA profiling
We present sc-FTDseq, a microchip platform for single-cell freeze-thaw lysis directly toward 3 mRNA ...
GSE107104: Increased expression of immune regulatory mediators independently detects tuberculosis in advanced HIV
Tuberculosis (TB) is the major cause of death in HIV-infected individuals. However, diagnosis of TB ...
GSE126153: Transcriptional changes associated with overexpression of TBX3 isoforms (TBX3iso1 and TBX3iso2) in the DCIS-like 21NT cell line (RNA-Seq)
Purpose: The acquisition of cellular invasiveness of breast epithelial cells and subsequent transiti...
GSE107181: Comprehensive analysis of Long non-coding RNA expression in dorsal root ganglion reveals cell type specificity and dysregulation following nerve injury [human iPS]
Dorsal root ganglion (DRG) neurons provide connectivity between peripheral tissues and spinal cord. ...
GSE107844: LncRNA Expression Profile of Human Thoracic Aortic Dissection by High-Throughput Sequencing
In this study, the long non-coding RNA (lncRNA) expression profile in human thoracic aortic dissecti...
GSE108308: A cell-permeable stapled peptide inhibitor of the estrogen receptor/coactivator interaction
We and others have proposed that coactivator binding inhibitors, which block the interaction of estr...
GSE119562 (human): Definition of Natural Killer cell heterogeneity in humans and mice by high-throughput single-cell RNA sequencing
Natural Killer (NK) cells are innate lymphoid cells (ILCs) involved in antimicrobial and antitumoral...
GSE112516: Co-regulation of alternative splicing by hnRNPM and ESRP1 during EMT
The epithelial-mesenchymal transition (EMT) is a fundamental developmental process that is abnormall...
GSE112714: Analysis of MGE Transcriptomes with or without Ctnnb1 knockout in human through RNA Sequencing
Purpose: Understand the cues that orchestrate the expansion or differentiation of medial ganglionic ...
GSE107993: A modular transcriptional signature identifies phenotypic heterogeneity of human tuberculosis infection [Leicester non-progressor]
Whole blood transcriptional signatures distinguishing patients with active tuberculosis from asympto...
GSE109524: Genome-scale Screens Uncover JNK/JUN signaling as a Key Barrier from Pluripotency to Human Endoderm Differentiation
Human embryonic stem cells (hESCs) are uniquely suitable for interrogating human development and bir...
GSE110990: Activation of the VEGFC/VEGFR3 pathway induces cancer immune escape through tumor-associated lymphatic vessels and macrophages in colorectal cancer
Colorectal cancer (CRC) is one of the major causes of cancer-related death in Western countries and ...
GSE111014: Chromatin mapping and single-cell immune profiling defines the temporal dynamics of ibrutinib drug response in chronic lymphocytic leukemia [scRNA-seq]
Chronic lymphocytic leukemia (CLL) is a genetically, epigenetically, and clinically heterogeneous di...
GSE108933: RNA-sequencing of human tendon after injury
RNA-sequencing for 6 samples SOURCE: Wei Zheng (695586848@qq.com) - Shanghai Jiao Tong University
GSE109419: Presence of meniscus tear alters gene expression profile of anterior cruciate ligament tears
Anterior cruciate ligament (ACL) tears occur in isolation or in combination with other intra-articul...
GSE108901: Differential miRNA Expression in B Cells/T Cells Associated with Inter-individual Differences in Humoral Immune Response to Measles Vaccination
Through Next Generation Sequencing (mRNA-Seq) of intracellular miRNAs in measles virus-stimulated B ...
GSE127564: Overexpression of HDAC8 establishes a unique gene signature in BRAF-mutant melanoma cells
Systems level analyses using mass spectrometry-based phosphoproteomics and RNA-Seq implicated HDAC8 ...
GSE115938: Parental and Vemurafenib-resistant UACC62 melanoma cells
Over half of cutaneous melanoma tumors have BRAFV600E/K mutations. Acquired resistance to BRAF inhib...
GSE109892: Clinical and genomic crosstalk between glucocorticoid receptor and estrogen receptor in endometrial cancer [RNA-seq]
Steroid hormone receptors are simultaneously active in many tissues and capable of altering each oth...
GSE109503: High-Depth Transcriptomic Profiling Reveals the Temporal Gene Signature of Mesenchymal Stem Cells During Chondrogenesis
Cartilage tissue engineering seeks to replace degenerated or damaged cartilage following disease or ...
GSE108869: An alternative CTCF isoform antagonizes canonical CTCF occupancy and changes chromatin architecture to promote apoptosis
CTCF plays key roles in gene regulation, chromatin insulation, imprinting, X chromosome inactivation...
GSE109409: Using Next-Generation Sequencing Transcriptomics to Determine Markers of Post-traumatic Symptoms - preliminary findings from a post-deployment cohort
Post-traumatic stress disorder is a concerning psycho behavioral disorder thought to emerge from the...
GSE108638: Widespread Changes in Transcriptome Profile of Human Mesenchymal Stem Cells Induced by Two-Dimensional (2D) Nanosilicates
Two-dimensional (2D) nanomaterials, an ultrathin class of materials such as graphene, nanoclays, tra...
GSE110644: Preclinical model of obesity and ER-positive breast cancer
Here, we developed a mouse model of diet induced obesity that is graft competent. In this model, we...
GSE130011: Gene expression, methylome and splicing of THP-1 monocytic cells and THP-1-derived macrophage
Monocytes and macrophages are essential components of the innate immune system. Herein, we report th...
GSE121226: Calibrated CAR activation potential directs alternative T cell fates and therapeutic potency
CD19-specific CARs that comprise CD28 and CD3z signaling domains program highly performing effector ...
GSE112608: Targeting Processive Transcription Elongation via SEC Disruption for MYC-Induced Cancer Therapy
The super elongation complex (SEC) is required for robust and productive transcription through relea...
GSE110656: Binding of TMPRSS2-ERG to BAF Chromatin Remodeling Complexes Mediates Prostate Oncogenesis. [RNA-seq]
Chromosomal rearrangements resulting in the fusion of TMRPSS2, an androgen-regulated gene, and the E...
GSE114051: Discovery of a Drug Candidate for GLIS3-Associated Diabetes
Through development and use of a minimal component protocol for derivation of late stage pancreatic ...
GSE140471: Transcriptomic analysis of CIC and ATXN1L in normal human astrocytes
Aberrations in Capicua (CIC) have recently been implicated as a negative prognostic factor in a mult...
GSE110948: RNA Seq data: A375, A375R, A375DR vorinostat treated, and biopy samples from patients pre- and post- treated with Vorinostat
BRAF(V600E) mutant melanomas treated with inhibitors of the BRAF and MEK kinases almost invariably d...
GSE109436: Next Generation Sequencing Analysis of Wild Type (WT) and SRSF1 knockdown (KD) U87MG and U251 cells Transcriptomes
We generated the SRSF1 knockdown U87MG and U251 cells by infecting with shRNA virus. Then, we extrac...
GSE129540: RNAseq analysis of ESRP regulated splicing events in prostate cancer
Progression of prostate cancer -the most frequent cancer in men- is driven by androgen steroid hormo...
GSE111672: Building a tumor atlas: integrating single-cell RNA-Seq with spatial transcriptomics in pancreatic ductal adenocarcinoma
To understand tissue architecture it is necessary to understand both which cell types are present an...
GSE109082: Sex Differences in the Late First Trimester Human Placenta Transcriptome
This study is the first characterization of the first trimester placenta transcriptome, highlighting...
GSE117655: HIV-1 Vpu exerts broad immunosuppressive effects by inhibiting NF-B-dependent gene expression
Using an unbiased RNA sequencing approach of primary CD4+ T cells infected with three wild type prim...
GSE109440: Extensive epigenomic integration of the glucocorticoid response in primary human monocytes and in vitro derived macrophages
Glucocorticoid receptor is a transcription factor that is ubiquitously expressed. Glucocorticoids ar...
GSE131581 (human): Combined Cohesin-Runx1 Deficiency Synergistically Perturbs Chromatin Looping and Causes Myelodysplastic Syndromes [RNA-seq]
STAG2 encodes a cohesin component and is frequently mutated in myeloid neoplasms, showing highly sig...
GSE117160: Inhibition of the Aryl Hydrocarbon Receptor - Polyamine Biosynthesis Axis Suppresses Multiple Myeloma and prostate cancer progression
Polyamine inhibition for cancer therapy is, conceptually, an attractive approach but has yet to meet...
GSE120919: Genome-wide survey of adjacent gene rearrangements in breast cancer identifies triple-negative specific BCL2L14-ETV6 fusions
Purpose: We investigated the function of overexpressed BCL2L14-ETV6 fusion variants in triple-negati...
GSE129522: RNA-Seq of CD4+ T cells treated with AS1842856 or DMSO
Quiescence is a hallmark of CD4+ T cells latently infected with HIV-1. While reversing this quiescen...
GSE109072: Toxicogenomics of the flame retardant tris (2-butoxyethyl) phosphate in HepG2 cells using RNA-seq.
Tris (2-butoxyethyl) phosphate (TBOEP) is a compound produced at high volume that is used as both a ...
GSE111717: WNT signaling memory is required for ACTIVIN to function as a morphogen
It has now become clear that the process of fate specification during early embryogenesis is mediate...
GSE115575: yylncT acts as a gatekeeper of the mesodermal transcriptional program by local modulation of DNMT3B [human_1]
Bidirectional transcription is a prevalent feature of eukaryotic promoters. The goal of this study i...
GSE134532: Single amino acid change underlies distinct roles of H2A.Z subtypes in human syndrome
Craniofacial disorder Floating-Harbor Syndrome (FHS) is caused by heterozygous truncating mutations ...
GSE107542: RNA G-quadruplex secondary structure promotes alternative splicing via the RNA binding protein hnRNPF
It is generally thought that splicing factors regulate alternative splicing through binding to RNA c...
GSE109463: A toxicogenomics approach to screen chlorinated flame retardants tris(2-chloroethyl) phosphate and tris(2-chloroisopropyl) phosphate for potential health effects
Tris(2-chloroethyl) phosphate (TCEP) is a pervasive flame retardant that has been identified as a ch...
GSE112656: Comprehensive Epigenetic Landscape of Rheumatoid Arthritis Fibroblast-like Synoviocytes [RNA-seq]
Epigenetics is important in the pathogenesis of immune-mediated diseases like rheumatoid arthritis (...
GSE109308: Single-cell transcriptomic survey of adenomatous polyposis patients with germline APC mutations
Patients with germline APC mutations are recognized by hundreds of adenoma polyps in colon, which wi...
GSE129555: Transcriptional and Functional Programming of Decidual Innate Lymphoid Cells
A successful pregnancy requires many physiological adaptations from the mother, including the establ...
GSE109142: Mucosal transcriptome of rectal biopsies in treatment-nave, pediatric ulcerative colitits patients
Using recal mucosal biopsies, collected prior to treatment in new-onset pediatric ulcerative colitis...
GSE129603: Gene-Centric Functional Dissection of Human Genetic Variation Uncovers Regulators of Hematopoiesis
Follow-up work was performed for SF3A2, a gene among the hits identified in a red blood cell trait G...
GSE112137: Human Cellular Model of Hypoxic Brain Injury of Prematurity
Extremely premature birth is associated with an increased risk for hypoxic brain injury due to lung ...
GSE109367: Transcriptome profiling of the interconnection of pathways involved in malignant transformation and response to hypoxia
In tumor tissues, hypoxia is a commonly observed feature resulting from rapidly proliferating cancer...
GSE110677: RNA-sequencing of isogenic primary, pre-malignant immortalized, and Ras-transformed human mammary epithelial cells
Understanding changes in gene expression during tumor initiation and progression is critical to unde...
GSE107878: Disruption of Autism Spectrum Disorder-Susceptibility Genes Predominantly Reduces Functional Connectivity of Isogenic Human Neurons
Autism Spectrum Disorder (ASD) is phenotypically and genetically heterogeneous, but genomic analyses...
GSE127696: Transcriptomic profile of cystic fibrosis airway epithelial cells undergoing repair
The purpose of the study is to compare the transcriptomic profile of the airway epithelium generated...
GSE109534: Human Huntingtons Disease iPSC-derived cortical neurons display altered transcriptomics, morphology and electrophysiological maturation
Huntington's disease (HD) is a neurodegenerative disease caused by an expanded CAG repeat in the Hun...
GSE135908: BAP18 is involved in upregulation of CCND1/2 transcription to promote cell growth in oral squamous cell carcinoma
Oral squamous cell carcinoma (OSCC) is a common malignant tumor worldwide and lack of biomarker for ...
GSE109322: Interferon- Converts Human Microvascular Pericytes into Negative Regulators of Alloimmunity through Induction of Indoleamine 2,3-Dioxygenase 1
Early acute rejection of human allografts is mediated by circulating alloreactive host effector memo...
GSE109483: Next-generation RNA-sequencing data of models of Ewing sarcoma with modulated expression of the lncRNA HOTAIR
Purpose: Our experimental results demonstrate an essential role for the lncRNA HOTAIR in Ewing sarco...
GSE113031: The IMiDs, through loss of Ikaros and Aiolos, primes myeloma cells for daratumumab mediated killing by upregulation of CD38
Recent studies have demonstrated that the immunomodulatory drugs (IMiDs) lead to the degradation of ...
GSE109706: Parkinsons Disease Genetic Risk in a Midbrain Neuronal Cell Line
In genome-wide association studies of complex diseases, many risk polymorphisms are found to lie in ...
GSE110206: Amlexanox targets the IKK-/TBK1/NF-B signaling axis to suppress the epithelial-to-mesenchymal transition and prostate cancer metastasis
Tumor metastasis is the major cause of death for prostate cancer (PCa) patients. However, the treatm...
GSE111620: RNA-seq analysis of PRMT5-regulated genes in irradiated/non-irradiated LNCaP cells
DNA Double-strand break (DSB) repair is critical for cell survival and genome integrity. Upon recogn...
GSE109570: Distinct Roles of BET Family Members in ER Enhancer Function and Gene Regulation in Breast Cancer Cells [RNA-seq]
Estrogen (E2)-dependent gene regulation mediated by estrogen receptor alpha (ER) plays a mitogenic r...
GSE111065: Circulating Tumor Cells Clustering Triggers DNA Methylation Changes to Enable Metastasis Seeding
Circulating tumor cells (CTCs) are precursors of metastasis in several cancer types, and are occasio...