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Sequencing-based assays page 67
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GSE113605: Single-cell transcriptomics confirms heterogeneity of contractile cells in large skin wounds
We report transcriptomes of pre-sorted skin wound dermal cells. Post-wounding day (PWD) 12, 15 and 2...
GSE114762: Kinetics of LPS induction in wt and Cop1-ko BMDMs
Bone marrow was extracted from mice that are COP1-wt Rosa26-CreERT2 or COP1-floxed Rosa26-CreERT2 BM...
GSE128728 (mouse): Alkylating Agent-Induced ER Stress Overcomes Microenvironmental Resistance to Lymphoma Therapy
Compartment-specific resistance to cancer therapy remains poorly understood. We utilized orthotopic ...
GSE112024: Cell-intrinsic Depletion of Aml1-ETO-positive Pre-leukemic HSCs by K-Ras Activating Mutation
Somatic mutations in acute myeloid leukemia (AML) are acquired sequentially and hierarchically. Firs...
GSE103492: Transcriptome analysis of Wnt3a-treated Wild Type, Lrp5KO , Lrp6KO and Lrp5/6KO osteoblasts
Wnt signaling is a major regulator of osteoblast differentiation and function. To investigate how Wn...
GSE114256: Polymorphisms in mitochondrial DNA genes coding for subunits in complex I differentially control lifespan and ageing-related pathways in mice.
Mitochondrial complex I, the largest enzyme complex of the mitochondrial oxidative phosphorylation m...
GSE112982: Metabolic signaling directs the reciprocal lineage decisions of and T cells
Development of ab and gd T cells requires coupling of environmental signals with metabolic and redox...
GSE112778: Transcriptome analysis of WT and CD2AP KO TFH cells in LCMV-c13 infection
We report CD2AP KO TFH cells in LCMVc13 infection have enhanced cytokine production and cell cycling...
GSE113606: RNA-seq and ATAC-seq analysis of the role of PBRM1 in various cell lines
We used RNA-seq to characterize the contributions of PBRM1 to gene expression in HK-2, NMuMG, and Ca...
GSE114998: KAP1 regulates ERVs in differentiated human cells and contributes to innate immune control
Endogenous retroviruses (ERVs) have accumulated in vertebrate genomes and contribute to the complexi...
GSE119681: Ribosome profiling of selenoproteins in vivo reveals consequences of pathogenic Secisbp2 missense mutations
Re-coding of UGA codons as selenocysteine (Sec) codons in selenoproteins depends on a selenocysteine...
GSE104790: Hemogenic endothelial fate mapping reveals dual developmental origin of mast cells.
Hematopoiesis occurs in distinct waves. Definitive hematopoietic stem cells (HSC) with the potential...
GSE112983: RNA sequencing of HepG2 cells treated with estradiol or estrogen receptor agonist
We report differential expressed genes in HepG2 cells treated with control, E2, or an ER agonist SOU...
GSE112373: sequencing data from control and PTEN-deficient mouse brain microvascular transcriptomes
Expression profiling of control and PTEN deficient cerebrovascular endothelial cells by high through...
GSE113670: RNA-seq of CD33 KO and control HSPCs
Gene expression profile of in vitro differentiated control and CD33 KO CD34+ cells (with 70-85% CD33...
GSE112055: Evaluation of PDE5A and PDE9A Inhibition Impacts on Cardiac mRNA Expression in a Mouse Pressure-Overload-Induced Heart Failure Model
Purpose: This study aimed to determine how two drugs, both ultimately activating the same effector k...
GSE48403: The Wnt/-catenin-signaling pathway is modulated by androgen ablation therapy for advanced clinical prostate cancer and contributes to androgen independent cell growth
Androgen ablation therapy (AAT) is standard treatment for locally-advanced/metastatic prostate cance...
GSE107908: OX40 regulates double-negative regulatory T cells dependently of its effects on conversion and function
Methods: To better understand the role of OX40 in the regulation of double-negative regulatory T cel...
GSE112532: Protein ISGylation regulated gene expression in mouse mammary epithelial cells
Purpose: The goals of this study are to use RNA-seq to identify genes whose expression are regulated...
GSE113247: Sauchinone controls hepatic cholesterol homeostasis by the negative regulation of PCSK9 transcriptional network
We performed transcript profiling of sauchinone treated with various doses on HepG2 cells using the ...
GSE104163: Dlx5 signaling cascade controls cranial neural crest and myoblast interaction during oropharyngeal patterning and development
Craniofacial development depends on cell-cell interactions, coordinated cellular movement and differ...
GSE114789 (mouse): UPA-Seq: Prediction of functional lncRNAs using the sensitivities to UV-crosslinking
Assuming that functional lncRNAs form larger ribonucleoprotein complex and thus are easily crosslink...
GSE155308: Paternal nicotine exposure promotes hepatic fibrosis in offspring
Paternal nicotine exposure can alter phenotypes in future generations. To explore whether paternal n...
GSE103718: Active fluctuations shape nucleus dynamics in oocytes
Nucleus position in cells can act as a developmental cue. Mammalian oocytes position their nucleus c...
GSE113227: Targeted degradation of BRD9 reverses oncogenic gene expression in synovial sarcoma [RNA-seq]
We used a CRISPR-based screening approach to identify functional vulnerabilities in pediatric sarcom...
GSE105413: Temporal control of metabolic amplitude by Nocturnin
The timing of food intake and nutrient utilization is critical to health and regulated in part by th...
GSE116475: Gene expression analysis of WT and Stat1-/- CD4+ T cells pre and post transfer into Rag1-/- mice
To understand the basis behind the defective survival/expansion of Stat1-/- CD4+ T cells in Rag1-/- ...
GSE114015: RNA sequencing data of Wild Type and Fmr1 KO hippocampal neuron
Fragile X syndrome (FXS), caused by mutations in fragile X mental retardation 1 gene (FMR1), is a pr...
GSE112805: Clever-1 controls site-specific interactions between vasculature and lymphocytes in mouse and human spleen
The goal of this study is to compare gene expression differences between WT and Stab1-/- spleen end...
GSE113254: Macrophage's response to TNF alpha blocker etanercept and Aspergillus fumigatus infection.
Macrophages from 3 healthy donors were generated and stimulated with A. fumigatus germ tubes (MOI 0,...
GSE112817: PAK4 suppresses RELB to prevent senescence-like growth arrest in breast cancer
Overcoming cellular growth restriction, including the evasion of cellular senescence, is a hallmark ...
GSE104630: Innate immune memory in the brain shapes neurological disease hallmarks [RNA-seq]
Innate immune memory is a vital mechanism of myeloid cell plasticity that occurs in response to envi...
GSE107880: Suppressive and stimulatory host processes during virus infection fate decisions
The processes and mechanisms of virus infection fate decisions that are the result of a dynamic viru...
GSE104302: Identification of LRH1-driven transcription factor circuitry for hepatocyte identity using cistromic analysis of super-enhancers
The gene expression circuitry that controls maintenance of normal liver physiology is poorly underst...
GSE113261: Mechanosensitive ion channel regulates tissue stiffening to promote glioma aggression
Tissue stiffening is a physical hallmark of solid tumor. In our study, we found that the mechanosens...
GSE106463: The transcription factor c-Maf is a positive regulator of IL-10 with context-specific roles in CD4+ T cell effector function and in vivo consequences [RNA-seq in vitro]
CD4+ T cells differentiate into distinct subsets which produce unique patterns of cytokines to eradi...
GSE119694: Differential gene expression in EpCAM+ pancreatic cancer cells with Lifr deficiency
The goal of this study is to investigate the molecular mechanisms of LIFR signaling in pancreatic ca...
GSE112766: DDX6 decouples translational repression from RNA degradation of miRNA targets [Ribosome Profiling]
Translation and mRNA degradation are intimately connected, yet the mechanisms that regulate them are...
GSE113030: NKp46 machinery required for effective NK cell killing
Comparison of NK1.1 NK cells in WT (B6) and Ly5.1(mut) mice at steady state andin response to tumor ...
GSE113406: Ablation of adipocyte BCL6 enhances subcutaneous adiposity and insulin sensitivity [RNA-seq]
In adipocyte-specific knockout mice (Bcl6AKO), we found that Bcl6 deletion results in strikingly inc...
GSE112094: RNA-seq identifies autophagy as the most prevalent upregulated pathway in dormant breast cancer cells
Purpose: The goal of this study is to evaluate the transcriptome profiling (RNA-seq) of dormant and ...
GSE104427: A TAD boundary is preserved upon deletion of the CTCF-rich Firre locus [RNA-Seq, HiC_C2C12, ChIP-Seq]
The binding of the transcriptional regulator CTCF to the genome has been implicated in the formation...
GSE117172: Chromatin-associated factors Dppa2 and Dppa4 guide epigenetic remodeling during reprogramming to pluripotency (RNA-seq)
As somatic cells are converted to iPSCs, their chromatin undergoes wide-ranging rearrangements that ...
GSE103796: Characterization of the ALK7 signaling pathway in PanNET, using cell lines that either express constitutively active ALK7 (ALK7-CA) or treated with activin B
Herein we report that the TGF superfamily receptor ALK7 is a suppressor of tumorigenesis and metasta...
GSE114517: Next generation sequencing reveals upregulation of the lncRNA LINC-PINT in the substantia nigra of human Parkinson's disease patients compared to control donors
Parkinson's disease (PD) is the second most common neurodegenerative disease, involving the selecive...
GSE115164: Peripheral blood transcriptomic analysis of genetic regulation mechanism of salmonella infection in mice
Analysis of gene expression profiles of 12 normal mice infected with Salmonella using deep sequencin...
GSE119377: Human Adipocytes Regulate Gene Expression in Triple-negative Breast Cancer Assessed by NGS Sequencing
Adipocyte was found play a pivotal role in tumorgenesis, progression and metastasis in breast cancer...
GSE119399: Transcriptome of E17 wild-type and Myh10L458R/L458R mutant lungs
Transcriptomic analysis between E17 wild-type and Myh10L458R/L458R mutant lungs (left lobes) SOURCE:...
GSE134548: RNA sequencing of splenic B cell populations prevalent in Py-infected mice
Purpose: To peform genome wide transcriptomic analyses and compare the expression profile among Plas...
GSE104920: Bone marrow derived macrophage vs peritoneal macrophage
Immunometabolism is a rapidly growing field, which has led to greater understanding of innate immune...
GSE118729: Gene expression profile of human iPSC-derived nephron progenitor cells
During development, nephron progenitor forming one million nephrons, a functional unit in the kidney...
GSE104802: Activity-Induced Regulation of Synaptic Strength through the Chromatin Reader L3mbtl1
Homeostatic synaptic downscaling reduces neuronal excitability by modulating the number of postsynap...
GSE114195: Loss of H3K9me3 heterochromatin at protein coding genes enables developmental lineage specification (RNA-Seq)
Domains of transcriptionally repressed heterochromatin, decorated by histone 3 lysine 9 trimethylati...
GSE114193: Mouse E14.5 Ret+ mechanoreceptors vs. laser captured spinal cord dorsal column midline cells
Our study examined a population of radial glial-like cells (RGLCs) in the dorsal spinal cord midline...
GSE114791: Kinome profiling of Non-Hodgkins lymphoma reveals Tyro3 is important in primary effusion lymphoma survival
Non-Hodgkins lymphomas (NHL) make up the majority of lymphoma diagnoses and represent a very diverse...
GSE109754: The fate of CD8+ T cells during infection is linked to their developmental origin [Virtual_Memory_following_infection_timestamp]
During immune ontogeny the thymus is colonized by distinct waves of hematopoietic stem cells that gi...
GSE103525: Gene expression profiles of Ofd1 and Kif3a mutant SMB21 cells generated by CRISPR knockout
Drug resistance poses a great challenge to targeted cancer therapies. In Hedgehog pathway-dependent ...
GSE119703: Sequencing of F4/40+ CD11b+ macrophages from adipose tissue of miR-146a WT or deficient mice on high fat or normal chow diet
We identify regulatory mechanisms that influence inflammation and metabolism during metabolic diseas...
GSE114529: Splicing and epigenetic factors jointly regulate epidermal differentiation
We report the effects of silencing SRSF1 or ZMAT2 in human epidermal stem cells on the transcriptome...
GSE114373: Isolation of Heart Field Specific Cardiomyocytes from Differentiating Human Embryonic Stem Cells for Cardiac Regeneration
Analysis of TBX5 and non-TBX5 derived cardiomyocyte populations from differentiating hESCs. SOURCE: ...
GSE125490: Glial cells maintain synapses by inhibiting an activity-dependent retrograde protease signal
We utilized genetic methods to examine how Schwann cells prevent degeneration of motor neurons (MNs)...
GSE116502: A conserved odor detection pathway via modulation of chromatin and cellular gene expression
Odorants in the environment that can cross the cell membrane are likely important detection targets ...
GSE114533: Quantitative analysis of Id1 Wild Type and Id1 knockout hematopoietic stem cells transcriptome
To explore the molecular basis by which Id1 loss promotes HSC quiescence under stress we compared th...
GSE121194: Downstream effects of YAP examined by RNA-Seq analysis of skin in YAP2-5SA-C transgenic mice
To obtain insights into the global changes of gene expression in the mouse skin in response to epide...
GSE104435: Transcriptomic and epigenomic analysis during conversion from mouse microglia into induced-neuronal (iN) cells
Purpose: The goals of this study are to investigate the mechanisms underlying NeuroD1 (ND1)-mediated...
GSE115894: Dynamic gene expression in T-ALL following treatment and release of gamma-secretase inhibition [GRO-Seq]
Gro-seq analysis following NOTCH1 inhibition and release gave an ovierview of the kinetics of NOTCH1...
GSE120811: HBO1 is required for the maintenance of leukaemia stem cells [RNA-seq]
Acute myeloid leukaemia (AML) is a heterogeneous disease characterised by transcriptional dysregulat...
GSE115081: Probiotic Bacillus subtilis CW14 Reduces the Epithelial Barrier Disruption and Toxicity of Ochratoxin A to Caco-2 cells
The multiple toxic effects of Ochratoxin A(OTA) are a real threat for human beings and animal health...
GSE115094: Casp8- and Casp11-dependent gene expression in ileal mucosa of LPS-challenged male mice
The execution of shock following high dose E. coli lipopolysaccharide (LPS) or bacterial sepsis in m...
GSE116114: RNA-Sequencing of human dermal lymphatic endothelial cells (HDLEC) treated with siRNA targeting YAP/TAZ and YAP5SA
We analyzed genome-wide transcriptional changes induced by siYAP/TAZ and YAP5SA, using RNA-seq analy...
GSE112377: Subtype diversification and synaptic specificity of stem cell-derived spinal interneurons
Neuronal diversification is a fundamental step in the construction of functional neural circuits, ye...
GSE114919: Differential ageing of growth plate cartilage determines skeletal proportions
Bones at different anatomical locations vary dramatically in size. The mechanisms responsible for t...
GSE116033: Transcriptional profiling of MST1 or FOXO1 depleted human umbilical vein endothelial cells
Analysis of human umbilical vein endothelial cells depleted for MST1 or FOXO1 by siRNA knockdown to ...
GSE117208: Architectural alterations in enhancer repertoires orchestrate senescence-associated secretory phenotype profile [RNA-seq]
The emerging 4D genome project aiming to map the dynamics of genomes in spatial and temporal dimensi...
GSE116501: Temporal activation of NR5A2 and RAR induce functional human nave pluripotent state via modulating TGF pathway
Rejuvenated primed human pluripotent stem cells, nave cells, are accessible through the manipulating...
GSE114284: IRF1 regulates IFN dependent and independent gene expression
We report the RNA sequencig results for the constitutive and IFN inducible gene expression in respir...
GSE115305: Self-associated molecular patterns mediate cancer immune evasion by engagement of Siglec receptors
Cancer immunotherapy targeting inhibitory receptors on T cells has changed the landscape of oncologi...
GSE114907: Transcriptome analysis of the glioma stem cells infected with ZIKV
Glioma stem cells derived from patient samples were infected with ZIKV at MOI of 1 for 48hrs, total ...
GSE123821: RNA-seq analysis for resistance to PI3K inhibition in Glioblastoma (GBM)
The goal of this study is to identify the pathway alterations driving the adaptive resistance to PI3...
GSE119960: Single cell sequencing of hypothalamus tissues in IDOL KO
A single cell suspension was generated from IDOL KO and Control mouse hypothalami, and single-cell m...
GSE108231: RNA sequencing of control and raptor-knockout mouse sciatic nerves after crush injury
In this study, we analyzed the transcriptome profiles of mouse sciatic nerves subjected to crush inj...
GSE120574: The immediate impact of exoribonucleolysis on nuclear RNA processing, turnover and transcriptional control revealed by rapid depletion of DIS3, EXOSC10 or XRN2 from human cells
Cell-based studies of human ribonucleases traditionally relies on methods that deplete proteins slow...
GSE117896: A Molecular Roadmap of the Phased Progression of Pluripotency
Pluripotency is highly dynamic and progresses through a continuum of pluripotent stem cell states. T...
GSE114926: RNA-Seq of sorted E10.5 and E11.5 AGM cell populations from Gata3-GFP embryos
The aim of this study was to examine the whole transcriptome of pools of 20 cells of Gata3-expressin...
GSE103685: Accurate H3K27 methylation patterns can be established de novo by SUZ12-directed PRC2
The Polycomb repressive complex 2 (PRC2) catalyzes H3K27 methylation and is required for maintaining...
GSE115127: ADAR1-editing in HeLa, p150-KO and ADAR1-KO transcriptomes
RNAseq analysis of cell lines with ADAR1-p150 and ADAR1-p110 knock-outs and primary human tissue sam...
GSE134555: Endothelial TGFb signaling drives vascular inflammation and atherosclerosis [bulk RNA-Seq]
Endothelial TGF signaling is one of the primary drivers of atherosclerosis-associated vascular infla...
GSE124221: Analysis of transcriptome changes following SOX2 knockdown in three different Ewing sarcoma cell lines
We report that knockdown of SOX2 in Ewing sarcoma cell lines promotes changes in the expression of s...
GSE109690: A Nucleosome Destabilizing Factor that Facilitates Transcription in Chromatin
Our understanding of transcription by RNA polymerase II (Pol II) is limited by our knowledge of the ...
GSE107840: The HUSH complex cooperates with TRIM28 to repress young retrotransposons and new genes
Retrotransposons encompass half of the human genome and contribute to the formation of heterochromat...
GSE116511: Tuft cells play a suppressive role in pancreatic injury and tumorigenesis [RNA-seq]
We perfromed RNA-seq on pancreatic and intestinal tuft cells and bone marrow derived macrophages SOU...
GSE114282: Transcriptional profile of MESH1-silenced RCC4 cells
Nutrient deprivation triggers stringent response in bacteria, allowing rapid reallocation of resourc...
GSE115740: GATA3 abundance is a critical determinant of T cell receptor beta allelic exclusion [GATA3-GFP]
RNA-seq in GFP-positive and GFP-negative DN4 stage thymocytes isolated from GATA3-GFP fusion protein...
GSE120440: KMT2B is selectively required for neuronal transdifferentiation [RNAseq]
Transdifferentiation of fibroblasts into induced Neuronal cells (iNs) by neuronal-specific transcrip...
GSE131358: A potent and selective small-molecule degrader of STAT3 achieves complete tumor regression in vivo
Signal transducer and activator of transcription 3 (STAT3) is an attractive cancer therapeutic targe...
GSE120379: Deep proteomic analysis of murine erythroid differentiation
Deciphering cellular proteomes is critical for our understanding of erythropoiesis. To better compre...
GSE113415: Parallel Bimodal Single-cell Sequencing of Transcriptome and Chromatin Accessibility (Human single cell RNA-seq)
We report a new technology for the parallel bimodal analysis of RNA-seq and ATAC-seq within a singl...
GSE113675 (human): Simultaneous multiplexed amplicon sequencing and transcriptome profiling in single cells
We developed a tunable ligation technology to alter beads used for to capture mRNA for single-cell R...
GSE119719: C57BL/6 substrain differences in inflammatory and neuropathic nociception and genetic mapping of a major quantitative trait locus underlying acute thermal nociception
Sensitivity to different pain modalities has a genetic basis that remains largely unknown. The use ...
GSE107217: Xist Deletional Analysis Reveals an Interdependency between Xist RNA and Polycomb Complexes for Spreading along the Inactive X
During X-inactivation, Xist RNA spreads along an entire chromosome to establish silencing. However, ...