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Sequencing-based assays (Page 128)
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GSE85941: Large-Scale Atlas of Mutant IDH1-Dependent Chromatin State Reprogramming, Reversibility, and Persistence [RNA-seq]
Isocitrate dehydrogenase 1 and 2 (IDH1 and IDH2) mutations drive the development of gliomas and othe...
GSE87360: Morphological and molecular characterization of human dermal lymphatic collectors
Millions of patients suffer from lymphedema worldwide. Supporting the contractility of lymphatic col...
GSE86202: Analyzing the interactions of mRNAs, miRNAs, lncRNAs and circRNAs to predict competing endogenous RNA networks in glioblastoma
Cross-talk between competitive endogenous RNAs (ceRNAs) may play a critical role in revealing potent...
GSE88848: Appropriately Differentiated ARPE-19 Cells Regain a Native Phenotype and Similar Gene Expression Profile
The retinal pigment epithelial (RPE) cell line ARPE-19 provides a widely-used alternative to native ...
GSE115168: ER proteostasis and temperature differentially impact the mutational tolerance of influenza hemagglutinin
Here, we present a systematic and quantitative test of the hypothesis that the composition and activ...
GSE94437: Comprehensive analysis of gene expression in human retina and supporting tissues
Purpose: To identify the differences of gene expression between the macula and periphery of the eye....
GSE89866: Moderate blast exposure alters gene expression and levels of amyloid precursor protein
Objective: Blast induced traumatic brain injuries are a signature injury of recent war campaigns; ye...
GSE89189: Generation of human microglia-like cells to study neurological disease
Microglia play important roles in developmental and homeostatic brain function, and influence the es...
GSE89334: Discovery of Drug Candidates that Inhibit and Eliminate Zika Virus Infection in Fetal and Adult Brain
Zika virus (ZIKV) infects fetal and adult human brains, and is associated with serious neurological ...
GSE89322: Single Cell RNA-Seq Analysis Reveals Fate Decision of Human Pre-cDC Determined by Transcription Factor Competition
Classic dendritic cells (cDCs) play a central role in the immune system and consist of two major sub...
GSE89888: RNA-seq analysis of ESR1 mutations in T47D and MCF7 cell lines
Purpose: Transcriptome analysis of ESR1 mutant cells was performed via sequencing total RNA in T47D ...
GSE98852: Single cell RNA sequencing of peanut-responsive T cells
Peanut-responsive T cells from peanut allergic subjects were identified and selected based on CD154 ...
GSE89942: An Argonaute phosphorylation cycle promotes microRNA-mediated silencing [whole transcriptome RNA-seq]
MicroRNAs (miRNAs) perform critical functions in normal physiology and disease by associating with A...
GSE95089: RNA-seq analysis revealed aberrant gene expression in motor neurons derived from ALS patient iPSCs bearing SOD1+/A272C mutation
The goal of this study is to gain insight into the early biomarkers and molecular pathways affected ...
GSE89478: Oncolytic reactivation of KSHV as a therapeutic approach for primary effusion lymphoma: RNA-sequencing of PEL cell lines during KSHV reactivation
Primary effusion lymphoma (PEL) is an aggressive subtype of non-Hodgkin lymphoma caused by Kaposis s...
GSE94989: Differential gene expression in Jagged1 treated human dental pulp cells.
The present study aimed to determine mRNA expression profilling of indirect immobilized Jagged1 trea...
GSE93813: Exploiting Prmt5-orchestrated intron detention signatures to treat splicing-addicted malignant glioma tumors
The presence of introns within otherwise completely spliced mRNA molecules has been associated with ...
GSE128880: Subcellular RNA fractions of primary human fibroblasts infected with the HSV-1 delta-ICP27 mutant
Primary human foreskin fibroblasts (HFF) were infected with the ICP27 null mutant of herpes simplex ...
GSE90164: Nm-seq finds thousands of modified 2-O-methylation sites in mRNA with base precision
Chemical modifications of messenger RNA (mRNA) molecules, collectively known as the epitranscriptome...
GSE94150: Memory CD4+ T cell subsets show differential responses to HIV latency reversing agents [LRA stimulated]
HIV-1 persists in individuals on ART in infected central (CM), transitional (TM) and effector memory...
GSE89940: An Argonaute phosphorylation cycle promotes microRNA-mediated silencing [polyA RNA-seq]
MicroRNAs (miRNAs) perform critical functions in normal physiology and disease by associating with A...
GSE90682: Mutations in EBF3 disturb transcriptional profiles and cause intellectual disability, ataxia and facial dysmorphism
From a GeneMatcher-enabled international collaboration, we identified ten individuals with intellect...
GSE97979: Perturbation-response genes reveal signaling footprints in cancer gene expression
Aberrant cell signaling can cause cancer and other diseases and is a focal point of drug research. A...
GSE89127: Suppression of adaptive responses to targeted cancer therapy by transcriptional repression [RNA-seq]
Large-scale genomic profiling efforts have facilitated the characterization of molecular alterations...
GSE99400: RNA-seq of GM15850 and GM15851 cells treated with synthetic transcription elongation factors.
Switching a paused RNA polymerase II into productive elongation is tightly-regulated, especially at ...
GSE89957: Analysis of human ES cell differentiation establishes that the dominant isoforms of the lncRNAs RMST and FIRRE are circular
Circular RNAs (circRNAs) are numerically abundant in human, predominantly derived from protein codin...
GSE90455: Genetic determinants and epigenetic effects of pioneer factor binding [RNA-seq]
Transcription factors (TFs) are the core drivers of gene regulatory networks that control developmen...
GSE126865: Gene expression in skeletal muscle in older individuals subject to ten days of complete bed rest.
Older individuals were subjected to complete bed rest for 10 days. Muscle biopsies from the vastus l...
GSE92578: Characterization of sperm lncRNA and its differently expression in the sperm of asthenozoospermic patients
Growing evidences have shown that many transcripts have been discovered in sperm and small noncoding...
GSE89368: DDX54 regulates transcriptome dynamics during DNA damage response [RNA-seq2]
The cellular response to genotoxic stress is mediated by a well-characterized network of DNA surveil...
GSE93321: Single cell gene expression in Dlxi1/2b::eGFP+ cells before and after migration, 2 weeks
We report the expression of selected genes associated with cortical, striatal and olfactory interneu...
GSE94035: Neuroblastoma cells undergo transcriptomic alterations during dissemination into the bone marrow and subsequent tumor progression
Background: Neuroblastoma is the most common extracranial solid tumor in childhood. The vast majorit...
GSE92651: Akt Activation Mediates Acquired Resistance to Fibroblast Growth Factor Receptor Inhibitor BGJ398
Activation of fibroblast growth factor receptor (FGFR) signaling through mutations, amplifications, ...
GSE96634: Abnormal RNA splicing and genomic instability after induction of DNMT3A mutations by CRISPR/Cas9 gene editing [RNA-Seq]
Purpose: DNA methyltransferase 3A (DNMT3A) mediates de novo DNA methylation. Mutations in DNMT3A are...
GSE106503: RNA-seq of cancer-associated fibroblasts (CAF) treated with PBS or extracellular vesicles (EV) from MCF10A or MDA-MB-231 cells
To identify gene expression changes associated with treatment of EV that carry high levels of miR-10...
GSE96642: Generation of mature lung alveolar epithelial cells from human pluripotent stem cells
We perform time-series global transcriptomic profiling of a directed differentiation protocol for ge...
GSE92744: Agonistic targeting of TLR1/TLR2 induces p38 MAPK-dependent apoptosis and NfkB-dependent differentiation of AML cells
Acute myeloid leukemia (AML) is associated with poor survival and there is a strong need to identify...
GSE93562: Gene Expression of Breast Cancer Cell Lines Across Biomaterial Platforms
2 Breast Cancer Cell lines were seeded onto TCPS, on 2D PEG-PC gels, and encapsulated in 3D PEG-Male...
GSE95057: Exploring the landscape of transcriptome 3 end diversity (TREND) by applying TRENDseq
Purpose: To identify key drivers of transcriptome 3end diversity (TREND) in neuroblastoma in a genom...
GSE95630: Tracing the temporal-spatial transcriptomic landscapes of the human fetal digestive tract by single cell RNA-seq analysis [fetal tissues]
The development of digestion tract is critical for proper digestion of food and absorbance of nutrie...
GSE94013: Canonical and non-canonical regulatory roles of androgen receptor variant 7 in prostate cancer
The androgen receptor splice variant 7 (AR-V7) lacks the ligand-binding domain; is detected with inc...
GSE99317: Maturing an Enteric Nervous System in Human Intestinal Organoid-derived Tissue-Engineered Small Intestine
Acquired or congenital disruption in enteric nervous system (ENS) development or function can lead t...
GSE132704: Timecourse of gene expression in HeLa cells (parental cells and clonal knockouts of MED12 and MED24) following induction by TNFa or IL-1b
Activation of nuclear factor kappa B (NF-kB) by inflammatory signals results in nuclear translocatio...
GSE95153: COMBINING BET AND MEK INHIBITORS SYNERGISTICALLY TARGETS NRAS MUTANT MELANOMA
Nearly 30% of all malignant melanomas harbor somatic mutations in NRAS. However, there are currentl...
GSE93265: Human monocytes exhibit a functional and transcriptional reprogramming during Acute-on-Chronic-Liver-Failure with a key role for IL-10
Background and aims: Acute-on-chronic liver failure (ACLF) is characterized by rapid deterioration ...
GSE112155: RNA-Seq analysis and comparison of corneal epithelium in keratoconus and myopia patients
We compared the transcriptome of keratoconus and control epithelium using RNA-Seq. Epithelial tissue...
GSE103547: Defining the developmental stage of human podocytes in kidney organoids derived from pluripotent stem cells
A critical event during kidney organogenesis is the differentiation of podocytes, specialized epithe...
GSE90734: Primate-specific gene TMEM14B promotes cortical expansion and folding
A massively expanded outer subventricular zone (OSVZ) in the primate and human has been proposed for...
GSE127959: Absence of NKG2D ligands defines human leukaemia stem cells and mediates their immune evasion
Patients with acute myeloid leukaemia (AML) often achieve remission yet subsequently die of disease ...
GSE92739: EWS-FLI1 represses Rho-actin signaling via MRTFB/YAP-1/TEAD perturbation in Ewing Sarcoma [RNA-Seq]
Ewing Sarcoma (EwS) is a EWS-FLI1- fusion driven pediatric bone cancer with high metastatic potentia...
GSE90748: Mycobacterium bovis Bacillus Calmette-Guerin (BCG) reprograms melanoma microenvironment to promote antitumor T cell responses
Intralesional therapy using Mycobacterium bovis Bacillus Calmette-Gurin (BCG) for cutaneous metastat...
GSE93657: A recessive p.Cys120Arg ENPP1 Mutation Causes a Dyschromatosis Universalis Hereditaria by Altering Melanogenesis
Propose: We used next-generation RNA sequencing (RNA-seq) to characterize the transcriptional change...
GSE90728: Tissue-resident memory features are linked to the magnitude of cytotoxic T cell responses in human lung cancer [NSCLC]
Therapies that boost the anti-tumor responses of cytotoxic lymphocytes (CTLs) have shown promise in ...
GSE125866: Long non-coding RNA expression profile associated with malignant progression of oral submucous fibrosis
Oral submucous fibrosis (OSF) as one of the malignant disorders endures a series of histopathologica...
GSE93991: The transition from proliferation to quiescence in glioblastoma stem-like cells requires Ca2+ signaling and mitochondria remodeling
Quiescence is a reversible cell-cycle arrest used by Cancer Stem Cells (CSCs) to evade killing follo...
GSE92839: Maturation of human iNSCs
The expression profiles of human iNSCs were compared to skin fibroblasts and brain-derived neural pr...
GSE93593: Single cell RNAseq characterization of cell types produced over time in an in vitro model of human inhibitory interneuron differentiation.
Diverse cell types are produced from dorsal and ventral regions of the developing neural tube. In th...
GSE111437: X-Ray induced DNA-Hydroxymethylation changes
In this study we addressed the question whether changes of DNA hydroxymethylation after X-ray irradi...
GSE90781: YEATS2 Links Histone Acetylation to Tumorigenesis of Non-small Cell Lung Cancer
Recognition of modified histones by reader proteins constitutes a key mechanism regulating diverse c...
GSE121112: Reprogramming of dermal papilla cell intact gene signature with 3D culture and Lef-1 overexpression
Reprogramming of dermal papilla cell intact gene signature with 3D culture and Lef-1 overexpression ...
GSE90876: Transcriptomic Profiling of Developing Human Paraxial Mesoderm from 4.5-5 Weeks of Gestation Human Embryos
Somites form during embryonic development and give rise to unique cell and tissue types, such as ske...
GSE93675: Effect of ROQUIN2(Y691F) expression on mRNA levels upon BCR stimulation
Roquin2, and its paralog Roquin1, are key regulator of mRNA decay. Roquin proteins recognize mRNAs c...
GSE101738: Measuring the effect of MYC on transcription during the DNA double-strand break response by RNA-seq of newly synthesized transcripts
We sequenced newly synthesized mRNA to determine which genes are differentially transcribed during t...
GSE94588: PARP3 is a promoter of chromosomal rearrangements and limits G4 DNA
Chromosomal rearrangements are essential events in the pathogenesis of both malignant and nonmaligna...
GSE90762: Proteolytic cleavage by taspase1 and the regulation of the stability of MLL1
Chromosomal translocations of the Mixed-lineage leukemia 1 (MLL1) gene generate MLL-chimeras that dr...
GSE94888: FUS mutant human motoneurons transcriptome analysis reveals altered pathways and impairment of microRNA function
Mutations in the RNA-binding protein FUS have been genetically linked to Amyotrophic Lateral Scleros...
GSE92387: Gene expresison studies of lupus and healthy B cell subsets through RNA sequencing
Dramatic expansions of class switched B cells lacking IgD and CD27 (double negative; DN), are charac...
GSE120364: Next Generation Sequencing Facilitates Quantitative Analysis of Gene expression profile in CD8+ T cells with TOX-overexpression
Purpose: Next-generation sequencing (NGS) has revolutionized systems-based analysis of cellular path...
GSE92506: Time series RNA profiling of endotheilal cells in response to atheroprone and atheroprotective flows
To profile shear stress-regulated endothelial transcriptomes, we performed RNA-seq with HUVECs subje...
GSE93705: Next Generation Sequencing Facilitates Quantitative Analysis of Human Pluripotent Stem Cell-Derived Endocardial-like And Primary Cardiac Endothelial Cell Transcriptomes
Next-generation sequencing (NGS) has significantly advanced the elucidation of developmental signali...
GSE90834: Systemic human ILC precursors provide a substrate for tissue ILC differentiation
Innate lymphoid cells (ILC) represent innate versions of T helper and cytotoxic T cells that differe...
GSE95297: Dynamics of HIV Latency and Reactivation in a Primary CD4+ T Cell Model
HIV latency is a major obstacle to curing infection. Current strategies to eradicate HIV aim at incr...
GSE96682: Prospective Isolation and Comparison of Human Germinal Matrix and Glioblastoma EGFR+ Populations with Stem Cell Properties
Characterization of non-neoplastic and malignant human stem cell populations in their native state c...
GSE146117: A modular differentiation system maps multiple human kidney lineages from pluripotent stem cells [RNA-Seq]
Recent studies using human pluripotent stem cells (hPSCs) have developed protocols to induce kidney-...
GSE93681: CRISPR/Cas9 Screens Reveal Epstein-Barr virus Synthetic Lethal Targets
Epstein-Barr virus (EBV) causes endemic Burkitt lymphoma and immunosuppression-related lymphomas. T...
GSE92459: Characterizing the epigenome of glioma stem cells (RNA-Seq)
Glioma initiating cells/stem cells exist in the bulk tumor of glioblastoma. This cell population con...
GSE94120: Transcriptome-wide response to synthetic chromatin protein PcTF
The goal of this study was to identify genes that become upregulated in response to a synthetic tran...
GSE95189: The ALK downregulated target gene HBP1 and repressor of MYCN activity as synergistic target for combined PI3K/HDAC inhibition [RNA-Seq]
ALK mutations occur in 10% of primary neuroblastoma and represent a major target for precision treat...
GSE99490: Transcriptome analysis of the Golgi stress response
We explore the transcriptional response of mammalian cells undergoing various insults to Golgi homeo...
GSE96106: Single cell RNA-sequencing of day 15 cells derived from the directed differentiation of human iPSCs towards lung epithelium
It has been postulated that during human fetal development all cells of the lung epithelium derive f...
GSE94907: RNA profiling Analysis of the Serum Exosomes Derived from Active and Latent M.tuberculosis infectious Patients
We performed RNA-seq analysis on exosomes derived from the clinical specimens of healthy control (HC...
GSE92882: Functional genomic analysis of the haploinsufficient tumor suppressor, CUX1
CUX1 is a homeodomain-containing transcription factor that is conserved, ubiquitous, and essential i...
GSE95282: Be1 and Be2 B cells are transcriptionally distinct
B cells cultured in the presence of Th1 CD4 T cells (Be1) or Th2 CD4 T cells (Be2) lead to distinct ...
GSE94153: RNA sequencing of erythroid and granulomonocytic colonies differentiated from transduced bone marrow CD34+ cells expressing U2AF1 S34F mutation, U2AF1 wild-type or empty vector control
Mutations of the splicing factor U2AF1 are frequent in the myeloid malignancy myelodysplastic syndro...
GSE120337: Genomic expression analysis of K562 cells expressing shRNA targeting lncRNA-IIRX and control cells
LncRNA-IIRX plays critical role in Bcr-Abl-induced tumorigenesis. To discover its mechanisms underly...
GSE103520: Transcriptome-wide response to synthetic chromatin protein PcTF
The goal of this study was to identify genes that become upregulated in response to a synthetic tran...
GSE92532: Altered regulation and expression of genes by BET family of proteins in alveolar macrophages from COPD patients
BET proteins (BRD2, BRD3, BRDT and BRD4) belong to the family of bromodomain containing proteins, wh...
GSE93605: Flura-Seq Identifies In Situ Transcriptomes of Micrometastases
Understanding the biology of rare cell populations in the context of their microenvironment requires...
GSE92917: Transcriptional profile in human S. haematobium infection
Genome-wide transcriptional survey in peripheral blood mononuclear cells (PBMCs) by RNA-Seq in schoo...
GSE94111: Rational targeting of RNA structure in SMN2 transcripts reverses Spinal Muscular Atrophy molecular phenotypes
Marine natural compound homocarbonyltopsentin PK4C9 is a small TSL2-binding molecule which was ident...
GSE96564: Single cell RNA-seq reveals expansion of IGRP-reactive CD4+ T cells in recent onset type I diabetes (single-cell RNA-seq of CD8+ influenza-reactive T cells)
Islet-reactive T cells found in peripheral blood of type 1 diabetes (T1D) subjects are thought to be...
GSE96083: Genome Scale Analysis of miRNA and mRNA regulation during preterm labor [whole blood]
The goal of this study was to define relationships between peripheral blood miRNAs and mRNAs of wome...
GSE93175: RNA sequencing quantitative analysis of exosome miRNAs in plasma in Metastatic renal cell carcinoma (mRCC)
Purpose: Since clinical characteristics are often inaccurate and subjective, we evaluated the progno...
GSE91383: The antineoplastic drug, trastuzumab, dysregulates metabolism in iPSC derived cardiomyocytes.
Background: The targeted ERBB2 therapy, trastuzumab, has had a tremendous impact on management of pa...
GSE91395: A Trichostatin A expression signature identified by TempO-Seq targeted whole transcriptome profiling
The use of gene expression signatures to classify compounds, identify efficacy or toxicity, and diff...
GSE93672: Low-Cell-Number, Single-Tube Amplification (STA) of RNAs Revealed miRNA Changes from Pluripotency to Endothelium
Non-coding RNAs (ncRNAs) are essential components in cellular machineries for translation and splici...
GSE97205: De novo reconstruction of human adipose reveals conserved lncRNAs as regulators of brown adipogenesis
Obesity has emerged as a formidable health crisis due to its association with metabolic risk factors...
GSE94116: Predicting susceptibility to tuberculosis based on gene expression profiling in dendritic cells
Tuberculosis is a deadly infectious disease, which kills millions of people every year. The causativ...
GSE96993 (human): Targeted reconstruction of T cell receptor sequence from single cell RNA-seq links CDR3 length to T cell differentiation state
The T cell compartment must contain diversity in both T cell receptor (TCR) repertoire and cell stat...
GSE97987: Intrinsic Immunity Shapes Viral Resistance of Stem Cells
Numerous studies have demonstrated that stem cells are more resistant to virus infection than their ...