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Sequencing-based assays (Page 143)
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GSE146851: CK1 Delta Is an mRNA Cap-Associated Protein That Drives Translation Initiation and Tumor Growth
We perform expression analysis on lymphoma cell lines Z-138 and OCI-Ly10 treated with a novel Casein...
GSE145115: Inhibition of the SUV4-20 H1 histone methyltransferase increases frataxin expression in Friedreichs ataxia patient cells
The molecular mechanisms of reduced frataxin (FXN) expression in Friedreichs ataxia (FRDA) are linke...
GSE147626: Deletion of Glutathione S-Transferase Omega 1 Activates Type I Interferon Genes and Downregulates Tissue Factor
Glutathione S-transferase omega 1 (GSTO1) is an atypical GST isoform that is overexpressed in severa...
GSE152983: An aberrant cytoplasmic intron retention programme is a blueprint for ALS-related RBP mislocalization
We recently described aberrant cytoplasmic SFPQ intron-retaining transcripts (IRTs) and concurrent S...
GSE150198: Activation of clustered IFN target genes drives cohesin-controlled transcriptional memory [single-cell RNA-seq]
Cytokine activation of cells induces gene networks involved in inflammation and immunity. Transient ...
GSE145316: Pan-cancer molecular analysis of the RB-pathway
The retinoblastoma tumor suppressor (RB1) plays a critical role in coordinating multiple pathways th...
GSE146889: RNA-seq Analysis of Archival Colorectal and Endometrial Cancer Samples Reveals Differences in Tumor Mutation Burden According to the Etiology of Defective DNA Mismatch Repair.
Tumor mutation burden (TMB) is an evolving biomarker for predicting response to immune checkpoint in...
GSE145326: FGFR4 is a regulator of tumor subtype differentiation in luminal breast cancer and metastatic disease
Mechanisms driving tumor progression from less aggressive subtypes to more aggressive states represe...
GSE145327: Loss of extreme long-range enhancers in human neural crest drives a craniofacial disorder
Non-coding mutations at the far end of a large gene desert surrounding the SOX9 gene result in a hum...
GSE154253: TNFAIP8 promotes AML chemoresistance by activating ERK signaling pathway through interaction with Rac1
The tumor necrosis factor induced protein 8 (TNFAIP8), a novel anti-apoptotic molecule, has been imp...
GSE147657: Transcriptional Profiling Uncovers Human Hyalocytes as a Unique Innate Immune Cell Population
Purpose: To decipher the transcriptional signature of macrophages of the human vitreous, also known ...
GSE146423: Next Generation Sequencing Facilitates Quantitative Analysis of A549 Control and A549 infected with Zika virus Transcriptomes
Purpose:The goals of this study to compare NGS-derived transcriptome profiling (RNA-seq) to examine...
GSE147394: Two subsets of stem-like CD8+ memory T cell progenitors with distinct fate commitments in humans
T cell memory relies on the generation of antigen-specific progenitors with stem-like properties. Ho...
GSE154905: Impact of differentiation media on Cystic Fibrosis airway epithelial cells
In vitro cultures of primary human airway epithelial cells (hAECs) grown at air-liquid interface hav...
GSE147334: RNAi Screening Identifies that TEX10 Promotes the Proliferation of Colorectal Cancer Cells by Increasing NF-B Activation
Colorectal cancer (CRC) has become a predominant cancer worldwide. In order to understand the proces...
GSE147470: AMPK1 deletion in myofibroblasts exacerbates post myocardial infarction fibrosis by a miR-125b and Connexin 43 mechanism
Myofibroblasts (MFs) are crucial components of the fibrotic remodeling after myocardial infarction (...
GSE146788: Functional determinants of sensitivity to CDK4/6 inhibition or cell-cycle plasticity
Intrinsic or acquired resistance to clinically approved CDK4/6 inhibitors have emerged as a major ob...
GSE147770: Systematic mapping of genetic interactions for de novo fatty acid synthesis identifies C12orf49 as a regulator of lipid metabolism [RNA-Seq]
The de novo synthesis of fatty acids has emerged as a therapeutic target for various diseases includ...
GSE153076: An early cell shape transition drives evolutionary expansion of human forebrain
The human brain has undergone rapid expansion since humans diverged from other great apes, but the m...
GSE152999: Induced organoids derived from patients with ulcerative colitis recapitulate the colitic reactivity
We report the application of single nucleus RNA-seq technology for transcriptomic-wide profiling of ...
GSE154164: Transcriptome analysis of CHEK1 overexpression (AC or HC) VS control (A or H) and CHEK1 knockdown (AK_D or HK_D) VS control (AK or HK) in Mutiple Myeloma.
Transcriptome sequencing was used to analyze changes in related signaling pathways and gene expressi...
GSE145575: Myogenic Progenitor Cell Lineage Specification by CRISPR/Cas9-based Transcriptional Activators
Engineered CRISPR/Cas9-based transcriptional activators can potently and specifically activate endog...
GSE147413: Targeted suppression of ZNF217-induced AKT signaling inhibits tumor growth and metastasis in osteosarcoma
We previously identified ZNF217 as an oncogenic driver of a subset of osteosarcomas (OSAs) using the...
GSE145628: Pancreatic cancer cells require the transcription factor MYRF (Myelin Regulatory Factor) to maintain ER homeostasis (RNA-Seq).
Many tumors of endodermal origin are composed of highly secretory cancer cells that must adapt endop...
GSE153032: Spatially discrete signalling niches regulate fibroblast heterogeneity in human lung cancer
Fibroblasts are functionally heterogeneous cells, capable of promoting and suppressing tumour progre...
GSE145647: Deconvolution of myeloid cell cytokine specific transcriptional profiles during tuberculosis and cancer identifies neutrophil activation as a prognostic feature [whole blood]
The cytokine environment and cellular infiltrate during an inflammatory response may contain prognos...
GSE147503: Synergistic Anti-Leukemic Effect Of Trc105 And Decitabine In AML Xenografts
Acute myeloid leukemia (AML) is an aggressive hematologic malignancy, often characterized by poor pr...
GSE146532: RNA-sequencing of bronchial epithelial cells from an adult cohort including asthmatics, COPD and healthy controls, cultured with Rhinovirus 1A
Rhinovirus infections exacerbate chronic respiratory inflammatory diseases such as asthma and chroni...
GSE154317: Transcriptional profiling and immunophenotyping show sustained activation of blood monocytes in subpatent Plasmodium falciparum infection.
Objectives: Malaria, caused by Plasmodium infection, remains a major global health problem. Monocyte...
GSE150873: Glutamine depletion regulates Slug to promote EMT and metastasis in pancreatic cancer [human]
Tumor cells rely on glutamine to fulfill their metabolic demands and sustain proliferation. The elev...
GSE154274: RRBS, RNA-seq of placenta in women with PCOS and RNA-seq of hippocampus and hypothalamus in femal rats born to PCOS rats.
Polycystic ovarian syndrome (PCOS) is characterized by hyperandrogenism, irregular ovulation and pol...
GSE153597: GIGYF2 and 4EHP Inhibit Translation Initiation of Defective Messenger RNAs to Assist Ribosome-Associated Quality Control
Ribosome-associated Quality Control (RQC) pathways protect cells from toxicity caused by incomplete ...
GSE150005: The MT1G gene in LUHMES Neurons is a Sensitive Biomarker of Neurotoxicity
Identification of toxicants that underlie neurological diseases is a neglected area awaiting a valid...
GSE155482: Regulated expression and function of the GABAB receptor in human pancreatic beta cell line and islets
G protein-coupled receptors (GPCRs) are seven transmembrane signaling molecules that are involved in...
GSE150619: The Role of Endothelial Autocrine NRG1/ERBB4 Signaling in Cardiac Remodeling
Neuregulin-1 (NRG1) is a paracrine growth factor, secreted by cardiac endothelial cells (Ecs) in con...
GSE148276: Estrogen receptor alpha mutations in breast cancer cells cause gene expression changes through constant activity and through secondary effects [RNA-seq]
While breast cancer patients with tumors that express estrogen receptor (ER) generally respond well...
GSE149369: Modelling the developmental spliceosomal craniofacial disorder Burn-McKeown syndrome using induced pluripotent stem cells
The craniofacial developmental disorder Burn-McKeown Syndrome (BMKS) is caused by biallelic variants...
GSE150857: Requirement for LIM kinases in acute myeloid leukemia
Acute myeloid leukemia (AML) is an aggressive disease for which only few targeted therapies are avai...
GSE149428: The transcriptomic response of cells to a drug combination is more than the sum of the responses to the monotherapies
Our ability to predict the effects of drug combinations is limited, in part by limited understanding...
GSE149390: Importance of RAD6B in activation of canonical WNT signaling in melanoma development
We have demonstrated that RAD6B, a ubiquitin conjugating enzyme that is a principal component of tra...
GSE149377: Large-scale production of human iPSC-derived macrophages for drug screening
Tissue resident macrophages are key players in inflammatory processes and their activation and funct...
GSE156471: CRISPR-Cas9 knockdown of RBM48 in K562 cells
U12-type or minor (U12) introns are spliced by a distinct minor spliceosome and are found in the vas...
GSE154998: Transcriptional Profiling of Leukocytes in Critically Ill COVID19 Patients
Objective: COVID19 is caused by the SARS-CoV-2 virus and has been associated with severe inflammatio...
GSE155031: Transcriptome analysis of SH-SY5Y neuroblastoma cells treated with copper and copper chelators (Dextran-Catechin - DC, and Tetraethylenepentamine pentahydrochloride - TEPA) in the presence or absence of interferon gamma
Therapeutic checkpoint antibodies blocking PD1/PD-L1 signaling have radically improved clinical outc...
GSE150954: Melanocyte precursors in the hair follicle bulge of repigmented vitiligo skin are controlled by RHO-GTPase, KCTD10 and CTNNB1 signaling
In repigmentation of human vitiligo, the melanocyte (MC) precursors in the hair follicle (HF) bulge ...
GSE148387: Transcriptional Characterization of the Tumor Microenvironment and Prognostic Gene Signatures in Conjunctival Melanoma
Purpose: To characterize the transcriptome and cellular the tumor microenvi-ronment of conjunctival ...
GSE148714: Only hematopoietic stem and progenitor cells from cord blood are susceptible to malignant transformation by MLL-AF4 translocations
MLL rearrangements (MLLr) play a crucial role in leukemogenesis. Dependent on age, major differences...
GSE148473: ARID1A mutations promote P300-dependent endometrial invasion through super-enhancer hyperacetylation (RNA)
Endometriosis affects 1-in-10 women and is characterized by the presence of abnormal endometrium at ...
GSE153291: lincNORS: A Noncoding Regulator of the Cellular Sterol Homeostasis I
We hereby provide the initial portrait of lincNORS, a spliced lincRNA generated by the MIR193BHG loc...
GSE152782: Cell-intrinsic Innate Immune Responses against Chikungunya Virus in a Human Ex Vivo Synovial Fibroblast Model
Purpose: Human primary synovial fibroblasts extracted from the knee were established as an ex vivo i...
GSE149602: A deep intronic splice mutation of STAT3 underlies hyper IgE syndrome by negative dominance
Heterozygous in-frame mutations in coding regions of human STAT3 underlie the only known autosomal d...
GSE150753: Absence of cGAS-Mediated Type I IFN Responses in HIV-1-Infected T-Cells
The DNA sensor cGAS senses cytosolic DNA and catalyzes the production of the cyclicdinucleotide cGAM...
GSE148517: Development of genetic quality tests for good manufacturing practice-compliant induced pluripotent stem cells and their derivatives
Purpose : We investigated RNA-seq-based broad-range genetic quality tests on GMP-compliant human leu...
GSE150880: Inhibition of O-GlcNAcylation via O-GlcNAc transferase fosters megakaryopoiesis and induces thrombopoiesis
We report that cellular O-GlcNAcylation levels decline along the course of megakaryocyte (MK) differ...
GSE155212: Quantitative mapping of transcriptome dynamics during polarization of human iPSC-derived neurons
Early neuronal development is a well-coordinated process in which neuronal stem cells differentiate ...
GSE152446: Cigarette Smoke Induces NOTCH3 Activation to Promote Goblet Cell Differentiation in Nonsmoker and COPD Airway Epithelial Cells
Chronic obstructive pulmonary disease (COPD) is the 3rd leading cause of death in the United States ...
GSE151079: RNAseq of 11 subsets of developing human postnatal thymocytes
The generation of TCR and TCR T cells proceeds through distinct developmental stages in which changi...
GSE151765: ERK5 is required for tumor growth and maintenance through regulation of the extracellular matrix in triple negative breast cancer
Depletion of ERK5 expression using the CRISPR/Cas9 system in MDA-MB-231 and Hs-578T cells resulted i...
GSE150588: Competition between PRC2.1 and 2.2 subcomplexes regulates PRC2 chromatin occupancy in human stem cells
Polycomb repressive complex 2 (PRC2) silences expression of developmental transcription factors in p...
GSE153388: Inflammatory transcript signatures and activated regulatory T lymphocytes in melanoma metastases
Purpose: to study the correlations between transcriptional signatures reflecting the abundance and f...
GSE149664: Generation of induced motor neurons (iMNs) from human fibroblasts facilitates locomotor recovery after spinal cord injury
Generation of autologous motor neurons holds a great promise for cell replacement therapy to treat s...
GSE151820: RUNX2 is a dependency factor in immature and KMT2A-rearranged T-cell acute lymphoblastic leukemia [KARPAS-45 RUNX2 shRNA knockdown RNA-seq]
T-cell acute lymphoblastic leukemia (T-ALL) is an aggressive hematologic malignancy with a high inci...
GSE152547: RNA-seq studies of Rhinovirus Response in asthma cases and non-asthma controls
There is a life-long relationship between rhinovirus (RV) infection and the development and clinical...
GSE155457: Genome-wide analysis of the FOXA1 transcriptional network identifies novel protein coding and lncRNA targets in colorectal cancer cells
Differentiation status of tumors is correlated with metastatic potential and malignancy. FOXA1 (fork...
GSE150716: p53-induced RNA-binding protein ZMAT3 is splicing regulator that inhibits the splicing of oncogenic CD44 variants in CRC [RNA-seq_UPF1]
Purpose: p53 is a well-studied protein in which the activation of its main targets is not enough to ...
GSE155495: Multiscale Analysis of Extracellular Matrix Remodeling in the Failing Heart
Rationale: Cardiac extracellular matrix (ECM) comprises a dynamic molecular network providing struct...
GSE148659: Allosteric HSP70 inhibitors perturb mitochondrial proteostasis and overcome proteasome inhibitor resistance in multiple myeloma
Proteasome inhibitor (PI) resistance remains a central challenge in multiple myeloma. To identify pa...
GSE148669: Sodium chloride generates anti-inflammatory Th17 cell responses but amplifies Th17 cell pathogenicity in pro-inflammatory cytokine microenvironments
T helper cells integrate signals from their microenvironment to acquire distinct specialization prog...
GSE156259: CMV-specific cytotoxic T lymphocytes (CTLs) RNA-seq at the late phase of allo-HCT
We conducted immune- and RNA-sequencing of HLA-A24-restricted CMVpp65-specific CTLs to better unders...
GSE148817: Cell-intrinsic differences between human tracheal epithelial cells from children and adults [cultured basal cells]
The airway epithelium is a key protective barrier whose integrity is preserved by the self-renewal a...
GSE148896: Transcriptomic changes in response to modulation of long-non-coding RNA, LINC00473
Human thermogenic adipose tissue mitigates metabolic disease, raising much interest in understanding...
GSE152819: Characterization of universal features of partially methylated domains across tissues and species
Partially methylated domains (PMDs) are a hallmark of epigenomes in reproducible and specific biolog...
GSE152855: MS2-TRIBE evaluates both protein-RNA interactions and nuclear organization of transcription by RNA editing
Nearly every step of RNA regulation is mediated by binding proteins (RBPs). The most common method t...
GSE153746: Glioma-initiating cells at tumor edge gain signals from tumor core cells to promote their malignancy
Intratumor spatial heterogeneity facilitates therapeutic resistance in glioblastoma (GBM). Nonethele...
GSE155442: Neoplastic-stromal cell crosstalk regulates matrisome expression in pancreatic cancer
Purpose: The goal of this study was to identify BET-dependent pathways in the PDAC stroma and the ep...
GSE151375: Memory sequencing reveals heritable single cell gene expression programs associated with distinct cellular behaviors
Non-genetic factors can cause individual cells to fluctuate substantially in gene expression levels ...
GSE156226: Multivalent proteins rapidly and reversibly phase-separate upon osmotic cell volume change [RNA-seq]
Processing bodies (PBs) and stress granules (SGs) are prominent examples of subcellular, membrane-l...
GSE155923: Effect of BET bromodomain inhibitor and/or mTOR inhibitor on transcriptome of small cell lung cancer patient-derived xenograft LX95 tumors
We report mTOR inhibitor (mTORi) is synergistic with BET inhibitor (BETi) in controlling tumor growt...
GSE155889: Genome-wide expression patterns of urinary and corresponding iPSCs of human, gorilla and orangutan
Comparing the molecular and cellular properties among primates is crucial to better understand human...
GSE154496: The epithelial splicingregulatorESRP2is epigenetically repressed by DNA hypermethylation in Wilms tumorand acts as a tumor suppressor
Wilms tumor(WT), a childhood kidney cancer with embryonal origins, has been extensively characterise...
GSE151699: Selective inhibition of CDK7 reveals high-confidence targets and new models for TFIIH function in transcription
CDK7 associates with the 10-subunit TFIIH complex and regulates transcription by phosphorylating the...
GSE153881: Mitochondrial RNA in Alzheimers Disease Circulating Extracellular Vesicles
Alzheimer's disease (AD) is the most common type of dementia. Extracellular amyloid (A) plaques an...
GSE154451: Methylation and gene expression data obtained from Dnmt3b+/+, Dnmt3bD/D and Dnmt3bCI/CI MYC induced T-cell lymphomas (MTCLs).
DNA methylation has suppressive effects on gene transcription and it is involved in a variety of phy...
GSE154596: Influenza virus infection induces widespread alterations of host cell splicing
Influenza A viruses (IAV) use diverse mechanisms to interfere with cellular gene expression and thus...
GSE156884: Modulating Androgen Receptor-driven Transcription in Prostate Cancer with Selective CDK9 Inhibitors [SLAM-seq]
Castration resistant prostate cancers (CRPCs) lose sensitivity to androgen deprivation therapies but...
GSE154577: A potential role for PLAGL1 in the regulation of blood vessel development
Throughout pregnancy, the placenta is important for the well-being of the fetus, transporting nutrie...
GSE157280: Spatiotemporal single-cell profiling of gastrointestinal GVHD reveals invasive and tissue-resident memory T cell states
One of the major barriers to understanding the control of T cell infiltration into target tissues ha...
GSE157585: Metformin Alters Skeletal Muscle Transcriptome Adaptations to Resistance Training in Older Adults
Evidence from clinical trials and observational studies suggests that both progressive resistance tr...
GSE154694: RNA squencing of human NK cells activated with IL-15 or IL-12, IL-15, and IL-18
NK cells are an emerging cancer cellular therapy and potent mediators of anti-tumor immunity. Cytok...
GSE156195: Interferon-enhances the differentiation of nave B-cells into plasmablasts via mTORC1 pathway
Type III interferon (IFN-) is known to be a potential immune modulator, but the mechanisms behind it...
GSE156211: Functional genomics of Non-NF2 meningioma development and progression [RNA-seq]
Meningiomas are the most common primary brain tumors, where complete surgical resection is often cha...