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Sequencing-based assays (Page 62)
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GSE109001: Human iPS-derived astroglia from a stable neural precursor state; improved functionality compared to conventional astrocytic models
Characterization of different astrocytes soruces was done using RNAseq including samples from human ...
GSE110951 (mouse): Solid phase chemistry to covalently and reversibly capture thiolated RNA
Here, we describe an approach to enrich newly transcribed RNAs from primary mouse neurons using 4-th...
GSE99022: An Mll4/COMPASS-Lsd1 epigenetic axis governs enhancer function and pluripotency transition in embryonic stem cells
Chromatin regulators control cellular differentiation by orchestrating dynamic developmental gene ex...
GSE117032: UBN1/2 of HIRA complex is responsible for recognition and deposition of H3.3 at cis-regulatory elements of genes in mouse ES cells [RNA-seq]
In this study, we demonstrate that the UBN1 or UBN2 subunit is mainly responsible for specific recog...
GSE100098: Neat1 is a p53-inducible lincRNA essential for transformation suppression
p53 is a transcriptional activator that induces myriad target genes. However, those p53-inducible ge...
GSE118750: Profiling and bioinformatics analyses reveal differential expression of circular RNA in tongue cancer revealed by high-throughput sequencing
Circular RNAs (circRNA) are special non-coding RNAs. They are widely present, but with unknown funct...
GSE109701: Primary cilia sensing-regulated transcriptome in the collecting duct
RNA-seq technology was used to reveal the transcriptome changes of tubular epithelia in response to ...
GSE109724: RB tumor suppressor promotes cancer immunity through downregulating PD-L1 expression
Aberrant expression of immune checkpoint protein programmed death ligand-1 (PD-L1) promotes immune t...
GSE117045: Effect of amphetamine on the transcriptome of overactive and control mouse lines
The goals of this study were to advance the understanding of the distinct impact of amphetamine acro...
GSE107490: TGF1-mediated functional inhibition of mesenchymal stromal cells in MDS and AML
Mesenchymal stromal cells (MSC) are involved in the pathogenesis of myelodysplastic syndromes (MDS) ...
GSE99903: Meg3 non-coding RNA expression controls imprinting by preventing transcriptional up-regulation in cis
Although many long non-coding RNAs (lncRNAs) are controlled by genomic imprinting, their roles often...
GSE108322: RNA deep sequencing analysis of glioma stem cells(GSCs) and non-GSCs
To explore potential molecular mechanisms underlying the temporal process of DNA damage and repair i...
GSE108902: Telomere dysfunction activates YAP1 to drive tissue inflammation
Inflammatory bowel disease (IBD) is a challenging condition with limited therapeutic options. Inflam...
GSE109731: Synergy from Gene Expression and Network Mining (SynGeNet) method predicts genotype-specific synergistic drug combinations in melanoma
Using our computational method SynGeNet to evaluate genomic and transcriptomic data characterizing f...
GSE117483: RNAseq in NMe wild type and NMe GATA site 1 and 2 homozygous mutant DN3 thymocytes
The NOTCH1-driven MYC enhancer (NMe) is essential for T cell development, transformation and the dev...
GSE111135: Chromatin Associated RNA-Seq of CD8+ T cells expressing different levels of Runx3 in a cell culture model of CTL differentiation [Chr Assoc]
T cell receptor (TCR) stimulation of nave CD8+ T cells initiates reprogramming of cis-regulatory lan...
GSE108614: A non-catalytic function of SETD1A regulates Cyclin K and the DNA damage response [RNA-seq]
MLL/SET methyltransferases catalyze methylation of histone 3 lysine 4 and play critical roles in dev...
GSE108080: Whole genome RNA-seq analysis of wild type or HIPK2-/- immortalized bone marrow-derived macrophages (iBMDM), with or without vesicular stomatitis virus (VSV) infection
Wild type or HIPK2-/- immortalized bone marrow-derived macrophages (iBMDM) were infected with VSV fo...
GSE117449: RNA-seq analysis of pro-B cells from RAG, double RAG/Emu, double RAG/3'RR and double RAG/KOKI deficient mice.
By their impact on nuclear organisation, enhancers are master regulators of cell fate. We thus devel...
GSE111694: Trascriptome profiling of murine Embryonic Stem cells under different culture conditions
Mouse Embryonic Stem (ES) cells have been cultured under chemically defined conditions in the absenc...
GSE121265: Quantifying continuous cell-cycle phase using single-cell gene expression data
The cell cycle is known to regulate cell proliferation and cell fate decisions, the underlying mecha...
GSE98739: RNA-seq dataset for Identifying Novel Therapeutic Targets by Combining Transcriptional Data with Ordinal Clinical Measurements
The widespread adoption of transcriptional profiling has led to immense repositories of data that ma...
GSE108651: Activation of the p53-MDM4 regulatory axis defines the anti-tumour response to PRMT5 inhibition through its role in regulating cellular splicing.
Here we describe broad anti-proliferative activity of potent, selective, reversible inhibitors of pr...
GSE109621: Gene expression profiling of Male and Female adult mouse liver using RNA-seq
Liver sex-specific long noncoding RNAs (lncRNAs) were identified based on three pools of male and th...
GSE109543: Transcriptome analyses of luminal-derived basal cells induced by hormones in the mammary gland
We have used RNA-seq to examine RNA differential expression among three populations, normal basal ce...
GSE100314: RNA-sequencing of fetal thymic epithelial cells (TECs), in control, loss-of-function and gain-of-function Notch mutants
We have shown that Notch signalling pathway is a potent regulator of thymic epithelial progenitor ce...
GSE129473: The Caudate Nucleus Undergoes Dramatic and Unique Transcriptional Changes in Human Prodromal Huntington's Disease Brain
The mechanisms underlying degeneration of the specific neurons in the striatum of Huntingon's Diseas...
GSE108643: Effects of Acute Aerobic Exercise on Skeletal Muscle Transcriptomics in Lean vs Overweight/Obese Men
Acute aerobic exercise has been shown to improve skeletal muscle mitochondrial function and complete...
GSE121191: Transcriptional profiling of mouse proximal tubular epithelial cells during injury and repair
Proximal tubule has a remarkable capacity for repair after acute kidney injury. Whether dedifferenti...
GSE108391: Patient-derived organoids (PDOs) model treatment response of metastatic gastrointestinal cancers.
We report RNAseq data from subsequent passages of five organoid cultures. SOURCE: Georgios Vlachogia...
GSE109631: Sequential enhancer sequestration dysregulates recombination center formation at the IgH locus
We reoprt that transcriptional level of distal VH is dependent of both intronic enhancer (E) and in...
GSE114687: A multiplex single-cell genetic screen identifies regulatory barriers in the continuum of the epithelial-to-mesenchymal transition
We demonstrate that progression along EMT occurs along a continuum and that interruption of key sign...
GSE108872: Tet1 and Tet2 Maintain Mesenchymal Stem Cell Homeostasis via demethylation of P2rX7 promoter
Ten-eleven translocation (Tet) family-mediated DNA oxidation represents a novel epigenetic modificat...
GSE109694: RNA-seq analysis of colon tumors collected from St2-/- and WT reciprocal bone marrow chimeric mice treated with azoxymethane.
Interleukin 33 (IL33) is an inflammatory cytokine released during necrotic cell death. The epitheliu...
GSE99074 (mouse): Transcriptomic analysis of purified human cortical microglia reveals age-associated changes
Purpose: Microglia are essential for central nervous system (CNS) homeostasis and innate neuroimmune...
GSE99808: Transient activation of tumor-associated macrophages boosts anti-tumor immunity
Depletion of immunosuppressive tumor-associated macrophages (TAM) or reprogramming towards a pro-inf...
GSE108611: Transcriptome of Dmrt3 KO, Dmrt5 KO, Dmrt3;Dmrt5 double KO and wildtype cortical tissue at E12.5.
Here we generated transcriptomes of dissected cortical tissue of Dmrt3 and Dmrt5 single knockout, of...
GSE109924: TAD cliques shape the 4-dimensional genome during dual lineage terminal differentiation
How genomic information is selectively utilized to direct spatial and temporal gene expression patte...
GSE108921: Gene Expression Profiling of WT and KDM3A Knocked out Cell
We identified KDM3A, a demethylase of histone H3K9me1/2, as a positive regulator for hippo target ge...
GSE99973: Thiol-linked alkylation for the metabolic sequencing of RNA [SLAM-seq in wildtype and Xpo5 knockout mES cells]
Gene expression profiling by high-throughput sequencing reveals qualitative and quantitative changes...
GSE100212: Increased dermal collagen bundle alignment in Systemic Sclerosis is associated with a cell migration signature and role of Arhgdib in directed fibroblast migration on aligned ECMs [bleomycin]
Systemic sclerosis (SSc) is a devastating disease affecting the skin and internal organs. Dermal fib...
GSE108658: EGFR-targeted therapy-induced resistance mechanism in glioblastoma
Analysis of mouse glioma tumors (in RAG1-/- mouse host) overexpressing Control(C) or Slug(S) viruses...
GSE127754: Single cell transcriptome analysis of TSCs differentiated TSCs, pTSCs and pTSCs isolated from blastoid
We performed scRNA seq according to the CEL-seq2 protocol in order to define the equivalent developm...
GSE100236: RNA sequencing of whole, ventral and dorsal hippocampus after different stress conditions
Purpose: The goal of this study was to characterize molecular stress responses on transcriptional le...
GSE113287: Transcriptional profile in human S. haematobium infection (II)
Genome-wide transcriptional survey in peripheral blood mononuclear cells (PBMCs) by RNA-Seq in schoo...
GSE108438: The chromatin remodeler Bptf activates a stemness gene-expression program essential for the maintenance of adult hematopoietic stem cells [RNA-Seq]
Bptf, a component of NURF chromatin-remodeling complex, is essential for maintaining the pool size a...
GSE108879: Single-cell transcriptomic analysis reveals lineage hierarcies and communications for second heart lineage deployment [RNA-seq]
We used single-cell RNA-seq to reconstruct differentiation paths of cardiac progenitors in two seque...
GSE110521: MLL-fusion-driven leukemia requires SETD2 to safeguard genomic integrity
MLL-fusions represent a large group of leukemia drivers, whose diversity originates from the vast mo...
GSE104990: Foxp2 Overexpression in BACHD mice
Alterations to corticostriatal glutamatergic function are early pathophysiological changes associate...
GSE108620: -catenin associated protein complex maintains ground state mouse embryonic stem cell by regulating lineage development
Mouse embryonic stem (ES) cells cultured in defined medium with MEK and GSK3 inhibitors (2i) resembl...
GSE109286: Impaired immunosurveillance by the simultaneous loss of both atypical PKCs drives intestinal cancer through the serrated pathway [IECs DKO aPKC]
The serrated adenocarcinoma subtype accounts for 15-30% of all colorectal cancers (CRCs) and is aggr...
GSE102369: RNA-seq of MMTV-Neu AXL KO tumor grafts in FVB
AXL is activated by its ligand GAS6 and is expressed in triple-negative breast cancer cells. We repo...
GSE108406: MDM2 inhibitors reverse the transcriptional effects of DMKG plus B87.
We reported for the first time that DMKG plus B87 kills cancer cells through a MDM2-dependent cell d...
GSE101823: Cell type-specific translation profiling reveals a novel strategy for treating fragile X syndrome
Excessive mRNA translation downstream of group I metabotropic glutamate receptors (mGlu1/5) is a cor...
GSE108675: Differencial gene expression between cortex and striatum of WT and ASCT1 (Slc1a4)-knockout mice
In order to explore possible consequence of ASCT1 (Slc1a4) deletion in neurodevelopment, we carried ...
GSE110557: RNA-seq analysis reveals profound changes in transcript profiles between siCon- and siH19-transfected uterine smooth muscle cells (USMC)
We used high throughput sequencing to analyze the gene expression profiling of human uterine smooth ...
GSE108350: Derivation of kidney organoids from human pluripotent stem cells [RNA-Seq: Data Set 2]
We have developed a robust methodology for the derivation of kidney organoids from human pluripotent...
GSE101856: Effects of Dpy30 loss on gene expression in mouse fetal liver HSCs
Profound distinctions exist between fetal liver (FL) and adult bone marrow (BM) hematopoietic stem c...
GSE117701: The mRNA export receptor NXF1 coordinates transcriptional dynamics, alternative polyadenylation and mRNA export
Alternative polyadenylation (APA) produces mRNA isoforms with different 3UTR lengths. Previous studi...
GSE109089: A CLK3-HMGA2 alternative splicing axis impacts human hematopoietic stem cell molecular identity throughout development [HSC and PROG RNA-seq]
While gene expression dynamics have been extensively catalogued during hematopoietic differentiation...
GSE109540: Perturbation of the OGT-TET1 interaction in mouse embryonic stem cells (RNA-Seq)
RNA-seq of wild type embryonic stem cells and cells bearing a mutation that perturbs the OGT-TET1 in...
GSE100296: Comparative dose-response analysis of liver and kidney transcriptomic effects of trichloroethylene and tetrachloroethylene in B6C3F1 mouse
Purpose: Trichloroethylene (TCE) and tetrachloroethylene (PCE) are ubiquitous environmental contamin...
GSE108885: Gene expression in BM niche populations
We report transcriptome profiling of bone marrow niche subsets at the population level. Additionally...
GSE109247: Loss of ADAMTS19 causes progressive non-syndromic heart valve disease
Single-cell transcriptome sequencing of E14.5 mouse hearts from Adamts19 wild-type and Adamts19 knoc...
GSE139830: RNA sequencing analysis of liver after overexpressing of hepatic miR-378
An improved mechanistic understanding of the thyroid hormone (TH) action on bile acid (BA) synthetic...
GSE108367: IKZF2 is required for myeloid leukemic stem cells by driving self-renewal and inhibiting the myeloid differentiation program
We report that IKZF2 is required for maintaining chromatin accessibility in leukemic stem cells in m...
GSE100358: RNA-seq analysis of liver transcriptomes from wild type and Ern1-LKO mice
This experiment was conducted to identify mRNA transcripts alteration in liver of Ern1 liver specifi...
GSE108925: Abnormalities in Behaviour, Histology and Prefrontal Cortical Gene Expression Profiles Relevant to Schizophrenia in Embryonic Day 17 MAM-Exposed C57BL/6 Mice
Gestational and perinatal disruption of neural development increases the risk of developing schizoph...
GSE108739: Skeletal muscle satellite cells, endothelial cells and single muscle fibers
There is considerable crosstalk between satellite cells, endothelilal cells and muscle fibers. Trans...
GSE102209 (mouse): Cooperation between TLX1 and the NUP214-ABL1/STAT5 signaling in T-cell acute lymphoblastic leukemia
The NUP214-ABL1 fusion is a constitutively activated tyrosine kinase that is significantly associate...
GSE103908: BCR-ABL1 inhibitors decrease cholesterol and atherosclerosis, and activate coagulation in a translational mouse model
Objectives: Treatment with the second and third generation BCR-ABL1 tyrosine kinase inhibitors (TKIs...
GSE101808: Neuregulin 1 type III reduces severity in a mouse model of Congenital Hypomyelination Neuropathy
Purpose: We hypothesised that neuregulin 1 type III would reverse CHN. Using a faithful mouse model ...
GSE124127: Insulin induced alterations in chromatin acetylation and transcriptome in triple negative breast cancer cells
We have performed quantitative H3K9ac ChIP-seq and RNA-seq from untreated and 3h, 6h insulin treated...
GSE109203: The Epigenetic dysregulation of lncRNA on gene expression in Colorectal tumor [RNA-seq]
Our data analysis unveils that differentially expressed long noncoding RNAs and some wrongly transcr...
GSE109120: Sex Differences in the Late First Trimester Human Placenta Transcriptome
This study is the first characterization of the first trimester placenta transcriptome, highlighting...
GSE120391: Transcriptome of thyroid cancer (TC) cells after coculture with TC-induced macrophages
RNA sequencing data of TPC-1 cells (TC cell line) after co-culture with TC-induced macrophages. We ...
GSE111150: Optimization of interneuron function by direct coupling of cell migration and axonal targeting
We compared transcripts from somatostatinpositive inteneruons in the migrating marginal zone and sub...
GSE102598: GKAP acts as a genetic modulator of NMDAR signaling to govern tumor invasiveness
Genetic linkage analysis suggested that GKAP, a scaffold protein of the NMDA receptor (NMDAR), was a...
GSE126770: Natural genetic variation reveals key features of epigenetic and transcriptional memory in virus-specific CD8 T cells
Stable changes in chromatin states and gene expression in cells of the immune system form the basis ...
GSE110950: Super-enhancer-guided decoding of gene regulatory networks in trophoblast stem cells
Cells belonging to trophoblast lineage are required for proper implantation and placentation, as wel...
GSE109472: p110 of PI3K is Indispensable for Quiescence Exit in Adult Muscle Satellite Cells
Adult muscle stem cells (MuSC) are quiescent with a localization between myofibers and basal lamina....
GSE101624: The neuropeptide Neuromedin U stimulates innate lymphoid cells and promotes type 2 inflammation [NMU]
The type 2 cytokines interleukin (IL)-4, IL-5, IL-9 and IL-13 play critical roles in stimulating inn...
GSE108447: AMPK promotes survival of c-Myc positive melanoma cells by suppressing oxidative stress
Although c-Myc is essential for melanocyte development, its role in cutaneous melanoma, the most agg...
GSE110593: Neurons under T cell attack orchestrate phagocyte-mediated synaptic stripping
RNA-seq libraries purified from rLCMV-Cre infected neurons using the Ribotag allele. Seq libraries a...
GSE111167: Impact of dieldrin on transcription in Jurkat T cells
Dieldrin is a pesticide with a suspected impact on chromatin. Here, we have exposed Jurkat cells to ...
GSE108990: Tissue- and strain-specific effects of a genotoxic carcinogen1,3-butadiene on chromatin and transcription
Epigenetic effects of environmental chemicals are under intense investigation to fill existing knowl...
GSE100495: Difference in characteristics between Endocardially-derived cardiac tissue macrophages (EcTMs) and non-Endocardially-derived cardiac tissue macrophages (non EcTMs)
[Purpose] To define the traditional profile of EcTMs, RNA seq analysis were parformed on EcTMs and n...
GSE108721: Bone protection by inhibition of microRNA-182
We performed RNA-seq experiments, one with the WT control and Mir182M/M osteoclast precursors at bas...
GSE109460: RNA-Seq analysis of JIB-04 effects on global cellular transcription and HIV in 2D10 T cells
Measuring the effects of the compound JIB-04 on global transcription, NFkB pathway-related genes, an...
GSE110626: RNA sequencing data from triple-negative breast cancer patient-derived xenografts (PDX)
RNAseq was performed on WHIM2 and WHIM30 PDX mammary tumors, brain metastases, and single cell suspe...
GSE133091: PKI overexpression in HEK293 cells
RNA sequencing (RNAseq) of unstimulated cells transiently expressing PKI1-24 or inPKI1-24 as a contr...
GSE109125: Immunological Genome Project ULI RNA-seq data
Raw files corresponding to diverse immunocyte populations sequenced using ImmGen's standard ultra-lo...
GSE109196: Comparing the Transcriptomes of Marf1 wildtype (WT) oocytes with those of Marf1-genetrap (GT-Mut) and Marf1-D272 mutant(D272-Mut) oocytes by RNA-Seq Analysis
The goal of this study is to reveal the globle changes of oocyte transcriptome after mutations of Ma...
GSE152171: Transcriptomic Response of Brain Tissue to Focused Ultrasound-Mediated Blood-Brain Barrier Disruption Depends Strongly on Anesthesia - Bulk RNA-seq
Focused ultrasound (FUS) mediated blood brain barrier disruption (BBBD) is a promising strategy for ...
GSE112642: Single cell transcriptomics reveal the dynamic of haematopoietic stem cell production in the aorta
We present single-cell mRNA-Sequencing of various endothelial and hematopoietic populations isolated...
GSE109054: Transcriptome analysis of developing mammalian postnatal intestinal crypts and villi
Villar and intervillar epithelial cells were FACs isolated from P0, P3, P6, or P10 CD1 mouse medial ...
GSE109457: Transcriptional changes of serum stimulation in mouse embryonic fibroblasts due to loss of PIN1
The goal of this study was to determine the transcriptional difference between WT and PIN1 knockout ...
GSE110676: Germinal Center B cell transcriptional profiles in Mef2b mouse models
The MEF2B transcription factor is recurrently mutated in germinal-center (GC)-derived B-cell lymphom...
GSE109185: Transcriptome analysis of iPSC-derived keratinocytes with or without a disease-associated TP63 mutation
Induced pluripotent stem cells (iPSC) were generated from two patients affected by ankyloblepharon e...
GSE100457: Transcription factor activity rhythms and tissue-specific chromatin interactions explain circadian gene expression across organs
Temporal control of physiology requires the interplay between gene networks involved in daily timeke...