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Sequencing-based assays (Page 140)
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GSE131267: A large peptidome dataset improves HLA class I epitope prediction across most of the human population
Prediction of HLA epitopes is important for the development of cancer immunotherapies and vaccines. ...
GSE132758: Single cell transcriptomics identifies stem cell-derived graft composition in a model of Parkinsons disease.
Cell replacement is a long-standing and realistic goal for the treatment of Parkinsons disease (PD)....
GSE136447: A developmental landscape of 3D-cultured human pre-gastrulation embryos
Knowledge detailing human pre-gastrulation embryonic development including spatial self-organization...
GSE131179: Landscape of innate immune system transcriptome and acute T-cell mediated rejection of human kidney allografts
Acute rejection of human allografts has been viewed mostly through the lens of adaptive immunity, an...
GSE132725: Transcriptome and ribosome profiling of XRN1-null HEK293T human cell line generated by CRISPR/Cas9 gene editing
XRN1 is the major cytoplasmic exoribonuclease in eukaryotes, which degrades deadenylated and decappe...
GSE132143 (human): Single cell RNA-seq analysis reveals the crucial role of Collagen triple helix repeat containing 1 (Cthrc1) cardiac fibroblasts for ventricular remodeling after myocardial infarction [RNA-seq]
Cardiac fibroblasts have a central role during the ventricular remodeling process associated to diff...
GSE133014: Distinct SOX signature determines neuroblastoma origin and predicts clinical outcome
Multimodality treatment of high-risk neuroblastoma can be effective, but up to 50% of children exper...
GSE134879: Exosomes mediate intercellular transference of non-autonomous tolerance to proteasome inhibitors in mixed-lineage leukemia.
The interplay between cancer cells and microenvironment can influence treatment response and plays a...
GSE138673: A critical but divergent role of PRDM14 in human primordial germ cell fate revealed by inducible degrons [RNA-seq]
PRDM14 is a crucial regulator of mouse primordial germ cells (mPGC), epigenetic reprogramming and pl...
GSE142630: Hiltonol and pRNA stimuli induce an immune activating profile in the transcriptomics of cDC1s
8 ligand), and compared these samples to unstimulated counterparts. Both methods, RNA-seq and microa...
GSE132694: Deciphering molecular mechanisms of MEIS1-mediated prostate tumor suppression through RNAseq and ChIPseq - RNAseq data
We conducted RNA-sequencing to determine MEIS1-mediated gene regulation in prostate cancer cells bec...
GSE133433: Development of a chimeric model to study and manipulate human microglia in vivo (scRNA-seq dataset)
iPSC-derived microglia offer a powerful tool to study microglial homeostasis and disease-associated ...
GSE134662: Stress responses, M2 macrophages, and a distinct microbial signature in fatal intestinal acute graft-versus-host disease
Transcriptome sequencing was applied to 44 colon Graft vs Host Disease (GVHD) biopsies from 22 patie...
GSE138639: Stop Codon Context Influences Genome-Wide Stimulation of Termination Codon Readthrough by Aminoglycosides [Dataset 2]
Stop codon readthrough (SCR) occurs when the ribosome miscodes at a stop codon. Such readthrough eve...
GSE133629: Targets mediated microRNA arm-imbalance promotes gastric cancer progression [lncRNA]
Two miRNA arms from the same precursor, miR-574-5p and miR-574-3p, were reversely expressed and play...
GSE133677: LncRNA NONHSAT113026 represses renal cell carcinoma tumorigenesis through interacting with NF-B/p50 and SLUG
We provide evidence that NOAT113026 inhibits renal cancer proliferative and mobility potential by bl...
GSE136751: Phenotypic mapping of pathological crosstalk between glioblastoma and innate immune cells by synthetic genetic tracing
Glioblastoma is a lethal brain tumor which exhibits heterogeneity and; resistance to therapy. Our un...
GSE131387: Editing the Sickle Cell Disease Mutation in Primary Human Hematopoietic Stem Cells: Comparison of Endonucleases and Homologous Donor Templates
Site-specific correction of a point mutation causing a monogenic disease in autologous hematopoietic...
GSE135069: Antiviral potential of human IFN- subtypes against influenza H3N2 infection in human lung explants
Determining the role of interferons in the host defence against influenza A virus; Methods: Tumor-fr...
GSE131375: A kinase inhibitor screen identifies a dual cdc7/CDK9 inhibitor to sensitise triple-negative breast cancer to EGFR-targeted therapy
Purpose: To investigate the impact of combined cdc7, CDK9 and EGFR inhibition on the transcriptomic ...
GSE138688: Derivation of trophoblast stem cells from nave human pluripotent stem cells [RNA-seq]
Nave human pluripotent stem cells (hPSCs) provide a unique experimental platform of cell fate decisi...
GSE157080: Transcriptome profiling of normal and DNMT3L-overexpressing human neurons [RNA-seq]
The objective of this study is to test the gene expression changes caused by DNMT3L overexpression i...
GSE131503: Small extracellular vesicles are key regulators of non-cell autonomous intercellular communication in senescence via the interferon protein, IFITM3
Senescence is a cellular phenotype present in health and disease, characterized by a stable cell cyc...
GSE133183: H3K27me3-rich genomic regions can function as silencers to repress gene expression via chromatin interactions
Gene repression and silencers are poorly understood. We reasoned that H3K27me3-rich regions (MRRs) o...
GSE132606: Antiviral innate immunity of hepatitis C virus-infected stem cell-derived hepatocytes
Purpose: RNAseq analysis of hPSC undergoing in vitro hepatic differentiation, to validate proper dif...
GSE133286: Transcriptional profiling of LS1034 cells treated with tepoxalin
LS1034 colorectal cancer cells were treated with DMSO vehicle control or 12 uM tepoxalin for 6 hours...
GSE134916: Next Generation Sequencing unveils the difference between human TR3-56 cells from healthy and T1D subjects
Purpose: The goal of this study was the transcriptome high-throughput data analysis of TR3-56 cells ...
GSE135140: U1 snRNP complex with cleavage and polyadenylation factors controls mRNA transcription termination
Full-length transcription in the majority of human genes depends on U1 snRNP (U1) to co-transcriptio...
GSE131409: Transcriptome of subsets of human haematopoietic stem cells from non-mobilised peripheral blood of healthy frequent platelet donors
Integration of index sorting and single cell functional assays identified two functionally distinct ...
GSE143152: A pan-cancer transcriptome analysis to identify the molecular mechanism of prexasertib resistance_RNASeq
The combined influence of oncogenic drivers, genomic instability, and/or DNA damage repair deficienc...
GSE133078: Alu RNA modulates the expression of cell cycle genes in human fibroblasts
Alu retroelements, whose retrotransposition requires prior transcription by RNA polymerase III to ge...
GSE139382: scRNA-seq reveals development of a broad spectrum of cell types in human iPSC derived hepatic organoids (HOs) and defines biomarkers in iPSC to liver lineage differentiation stages
At each differentiation stage, HO cultures contain different types of cells, and sub-populations of ...
GSE133308: Inhibition of histone H3K27 demethylases inactivates brachyury (TBXT) and promotes chordoma cell death [RNA-Seq III]
The expression of transcription factor brachyury (TBXT) is normally restricted to embryonic developm...
GSE131475: Circular RNA expression alteration in peripheral blood of premature infants with periventricular white matter damage
Periventricular white matter damage (PWMD) is the principal pathological type of brain damage in pre...
GSE131504: Characterization of Human Pegivirus Infection in Liver Transplantation Recipients
Approximately 2% of heathy persons are infected with human pegivirus (HPgV). HPgV is transmitted via...
GSE137083: PML2-mediated thread-like nuclear bodies mark deep senescence in HGPS cells [RNA-seq]
Regular nuclear structure is critical for genome maintenance and proper gene expression, disorder of...
GSE131552: Identification of monocyte-like precursors of granulocytes as a mechanism for accumulation of PMN-MDSC in cancer
Polymorphonuclear myeloid-derived suppressor cells (PMN-MDSC) inhibit immune responses in cancer, li...
GSE131571: Integrated analysis of H2A.Z isoforms reveals a complex interplay in gene regulation [U2OS_siZ1-siZ2 RNA-seq]
The H2A.Z histone variant plays major roles in the control of gene expression. In human, H2A.Z is en...
GSE132931: Transcriptional signature of MAITs in LTBI (CD8+ or CD8-)
We applied a cell population transcriptomics strategy to sorted human memory CD8 T cells to define n...
GSE132932: Transcriptional signature of MAITs in LTBI (memory CD8 T cells and subsets of TRAV1-2+CD161+ MAITs)
We applied a cell population transcriptomics strategy to sorted human memory CD8 T cells to define n...
GSE136803: ABCB5 is activated by MITF and b-catenin and is associated with melanoma differentiation
Defining markers of different phenotypic states in melanoma is important for understanding disease p...
GSE134898: A cancer-specific ubiquitin ligase drives alternative polyadenylation by targeting PCF11
Alternative polyadenylation (APA) contributes to the complexity of the transcriptome by generating m...
GSE136666: Transcriptomic profiling of substantia nigra and putamen in Parkinsons disease
We report RNA sequencing results of human substantia nigra and putamen samples from Parkinson's dise...
GSE135707: PSEN1E9, APPswe and APOE4 confer disparate phenotypes in human iPSC-derived microglia
Here we elucidate the effect of Alzheimers disease (AD)-predisposing genetic backgrounds, APOE4, PSE...
GSE136310: CT Irradiation Induced Changes of Gene Expression within Peripheral Blood Cells
In this study, we describe a potential novel gene expression biomarker for early post-irradiation bi...
GSE134122: Transcriptional responses of human insulinoma cells to acute cytokine exposure
Purpose: The goal of this study is to characterize the effects of acute cytokine stimulations on hum...
GSE143233: RNA m6A methylation regulates sorafenib-resistance in liver cancer through FOXO3-mediated autophagy [RNA-seq]
N6-methyladenosine (m6A) is a type of nucleotide modification abundant in mRNA, which regulates mRNA...
GSE136243: Presymptomatic Increase of an Extracellular RNA in Blood Plasma Associates with the Development of Alzheimers Disease
The extracellular RNAs (exRNAs) from human biofluid have recently been systematically characterized....
GSE133022: Redundant and specific roles of cohesin STAG subunits in chromatin looping and transcription control (RNA-Seq)
Cohesin is a ring-shaped multiprotein complex that is crucial for 3D genome organization and transcr...
GSE134141: The analysis of copy number alterations from a lncRNA perspective reveals a regulator of lung cancer immune evasion
Cancer is characterized by genomic instability leading to deletion or amplification of oncogenes or ...
GSE136326: In vivo atlas of RNA secondary structures recognized by ADARs [RNA-Seq]
We performed irCLASH and HiCLIP for ADAR1-3 in HEK293 cells. In addition, we performed mRNA-seq in A...
GSE133086: Dual RNA-Seq characterization of host and pathogen gene expression in liver cells infected with Crimean-Congo Hemorrhagic Fever Virus
Crimean-Congo hemorrhagic fever virus (CCHFV) is a tick-borne virus that can cause a hemorrhagic fev...
GSE135713: Postnatal lipids drive hepatocyte maturation
Rodent lipid metabolism and postnatal nutrition is fundamentally different from humans. Therefore, w...
GSE135328: Loss of the nuclear Wnt pathway effector TCF7L2 promotes migration and invasion of human colorectal cancer cells
The transcription factor TCF7L2 is indispensable for intestinal tissue homeostasis where it transmit...
GSE136908: RNA Seq of HMVEC under hypoxia
Purpose: to profile transcriptome changes due to EC-AGO1-deficiency; Methods: We had HMVECs subjecte...
GSE133144: Translocation of dense granule effectors across the parasitophorous vacuole membrane in Toxoplasma-infected cells requires the activity of ROP17, a rhoptry protein kinase
Toxoplasma gondii tachyzoites co-opt host cell functions through introduction of a large set of rhop...
GSE136763: Endogenous retroviruses are a source of oncogenic enhancers in acute myeloid leukemia [RNA-Seq]
Endogenous retroviruses (ERVs) and other transposons can act as tissue-specific regulators of gene e...
GSE136795: Self-renewing Endometrial Epithelial Organoids of the Human Uterus [bulk RNA-seq data]
The inner lining of the human uterus, termed the endometrium, is replete with glands that are hypoth...
GSE134459: Genome-wide maps of transcriptomic and epigenomic state in melanoma cell lines
A mechanistic relationship between tumor epigenetic plasticity and nongenetic adaptive resistance to...
GSE134164: The RNA helicase DDX6 regulates self-renewal and differentiation of human and mouse stem cells [RNA-seq2]
Post-transcriptional mechanisms have the potential to influence complex changes in gene expression, ...
GSE133264: Loss of ER and nuclear envelope-associated neutral sphingomyelinase SMPD4 causes a severe neurodevelopmental disorder with microcephaly and congenital arthrogryposis
Several neurodevelopmental processes including neuronal survival, migration and differentiation are ...
GSE136314: Kidney organoid reproducibility across multiple human iPSC lines and diminished off target cells after transplantation revealed by single cell transcriptomics
Human iPSC-derived kidney organoids have the potential to revolutionize discovery, but assessing the...
GSE133285: Transcriptional profiling of SF295 cells following MTF1 knockout by CRISPR/Cas9
SF295 glioblastoma cells were subjected to CRISPR/Cas9-mediated knockout of the MTF1 (metal regulato...
GSE136366: Gene expression analysis of the impact of TDP-43 knockout in human cells.
Purpose: The goal of this stuydy was to apply transcriptome profiling (RNA-seq) to human cells tha...
GSE136609: Transcriptome analysis to UHRF1 depletion in MUTU I cells
RNAseq was used to identify host and viral transcriptome changes in UHRF1 knock-out MUTU I cells. U...
GSE141126: Transcriptome analysis-identified long noncoding RNA CRNDE in maintaining endothelial cell proliferation, migration, and tube formation
Obesity is a leading risk factor for type-2 diabetes. Diabetes often leads to the dysregulation of a...
GSE134232: Investigation of transcriptional response upon loss of RanBP3
Transcriptional changes were assessed using RNA-Seq after depleting RanBP3 or RCC1 protein. SOURCE: ...
GSE133479: Cancer avatars derived from genetically engineered pluripotent stem cells allow for longitudinal assessment of tumor development
Many current cellular models aimed to elucidate cancer biology do not recapitulate pathobiology incl...
GSE133509: Cancer avatars derived from genetically engineered pluripotent stem cells allow for longitudinal assessment of tumor development
Many current cellular models aimed to elucidate cancer biology do not recapitulate pathobiology incl...
GSE143190: Selective retrieval of individual cells from microfluidic arrays combining dielectrophoretic force and directed hydrodynamic flow
Hydrodynamic-based microfluidic platforms enable single-cell arraying and analysis over time. Despit...
GSE136421: MKRN2 physically interacts with GLE1 to regulate mRNA export and zebrafish retinal development (RNA-Seq)
The canonical mammalian mRNA export process is thought to terminate at the cytoplasmic face of the n...
GSE134809: Single-cell analysis of Crohns disease lesions identifies a pathogenic cellular module associated with resistance to anti-TNF therapy
Clinical benefits of cytokine blockade in ileal Crohns disease (iCD) are limited to a subset of pati...
GSE133630: TGF-beta couples pluripotency and epithelial character via ZNF398
Human pluripotent stem cells (hPSCs) have the capacity to give rise to all differentiated cells of t...
GSE135635: RNA-sequencing in plasmacytoid dendritic cells from patients with primary Sjogren's syndrome (pSS), non-Sjogren's sicca (nSS), and healthy donors (HC)
We here provide the first in-depth molecular analysis of pDCs from patients with pSS and nSS in comp...
GSE133432: Development of a chimeric model to study and manipulate human microglia in vivo (bulk RNA-seq dataset)
iPSC-derived microglia offer a powerful tool to study microglial homeostasis and disease-associated ...
GSE134960: YBEY is an essential biogenesis factor for mitochondrial ribosomes
Ribosome biogenesis relies on a number of specific factors. Some of them are remarkably conserved, s...
GSE135223: Human macrophage responses to viral-like particles from non-IBD or IBD colonic resections
Peripheral blood-derived macrophages were stimulated with viral-like particles isolated from colonic...
GSE136414: Prolyl Hydroxylase Substrate Adenylosuccinate Lyase Is An Oncogenic Driver In Triple Negative Breast Cancer
Protein hydroxylation extensively regulates cellular signaling by affecting protein stability, activ...
GSE142620: Chronic inflammation induces epithelial-to-mesenchymal transition memory in non-small cell lung cancer
Chronic inflammation facilitates tumor development. However, the underlying mechanism is largely unk...
GSE141099: AGO2 mutations impair RNA interference and human neurological development
Argonaute-2 forms together with associated miRNAs the RNA induced silencing complex (RISC), which re...
GSE134320: Treatment of melanoma cell lines with CCG-222740
The Ras/MEK/ERK pathway has been the primary focus of targeted therapies in melanoma, given that it ...
GSE139377: Molecular Quantitative Trait Locus Mapping In Human Endothelial Cells Identifies Regulatory SNPs Underlying Gene Expression and Complex Disease Traits
Identification of causal variants and mechanisms underlying complex disease traits in humans require...
GSE141828: Transcriptome profiling of the microdissected breast tissue compartments
In addition to the accumulation of pro-oncogenic mutations in the epithelial cells, the tumorigenic ...
GSE135055: Multi-level transcriptome sequencing identifies COL1A1 as a candidate marker in human heart failure progression
Background: Heart failure (HF) has been recognized as global pandemic with a high rate of associated...
GSE135113: Gene expression profiles of MLL-AF4 acute lymphoblastic leukaemia blasts retrieved from central nervous system and spleen
Purpose: To investigate metabolic adaptation of leukaemia in two different microenvironments: centra...
GSE143319: Inhibition of Grb14, a negative modulator of insulin signaling, improves glucose homeostasis without causing cardiac dysfunction
Insulin resistance increases patients risk of developing type 2 diabetes (T2D), nonalcoholic steato...
GSE136560: Molecular basis of cisplatin resistance in testicular germ cell tumors
The emergence of cisplatin (CDDP) resistance is the main cause of treatment failure and death in pat...
GSE137108: Chronic mucocutaneous candidiasis and connective tissue disorder in humans with impaired JNK1-dependent responses to IL-17A/F and TGF- [RNA-Seq]
Genetic etiologies of chronic mucocutaneous candidiasis (CMC) disrupt human IL-17A/F-dependent immun...
GSE135193: Triangular Correlation (TrC) between cancer aggressiveness, cell uptake capability and cell deformability
The malignancy potential is correlated with mechanical deformability of the cancer cells. Therefore,...
GSE135192: Differential gene expression of lymphocytes stimulated with rhinovirus species A and C in asthmatic and non-asthmatic children
Background: Evidence suggests that immune responses to rhinovirus A and C are altered in asthmatic c...
GSE135222: DNA methylation loss coupled with mitotic cell division promotes immune evasion of tumours with high mutation load [RNA-seq]
Mitotic cell division increases tumour mutation burden and copy number load, predictive markers of t...
GSE136928: Identification of miRNA-mRNA regulatory network for Human Atrial Aging [mRNA]
We report an integrative analysis of miRNA-seq and mRNA-seq to identify miRNAs, genes, and miRNA-mRN...
GSE135188: Intermittent exposure to whole cigarette smoke alters the differentiation of primary small airway epithelial cells in the air-liquid interface culture
Cigarette smoke (CS) is the leading cause to develop COPD. Therefore, we investigated the pathologic...
GSE135202: Single-cell tracing of the first hematopoietic stem cell generation in human embryos
Tracing the emergence of the first hematopoietic stem cells (HSCs) in human embryos, particularly th...
GSE135194: Single-cell RNA-seq reveals a distinct transcriptome signature of hematopoiesis in GATA2 deficiency
Background and Purpose: Constitutional GATA2 deficiency caused by heterozygous germline GATA2 mutati...
GSE135287: Transcriptome analysis of iPSC-derived neurons from Rubinstein-Taybi patients reveals deficits in neuronal differentiation.
Rubinstein-Taybi syndrome (RSTS) is a rare multisystem developmental disorder with moderate to sever...
GSE135285: Epigenetic basis for monocyte dysfunction in acute-on-chronic liver failure and alcoholic hepatitis [RNA-seq]
BACKGROUND/ AIMS:; Severe forms of alcoholic liver disease are associated with increased susceptibil...
GSE137020: Phenotypic states of leptomeningeal metastasis
Leptomeningeal metastasis (LM), or spread of cancer cells into the cerebrospinal fluid, is character...
GSE135870: Suppression of p53 response by blocking p53Mediator binding with a stapled peptide
DNA-binding transcription factors (TFs) have been challenging to target with molecular probes. Many...
GSE135458: A precisely positioned MED12 activation helix stimulates CDK8 kinase activity
The Mediator kinase module regulates eukaryotic transcription by phosphorylating transcription-relat...