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Sequencing-based assays page 41
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GSE125616: Single-cell RNA sequencing reveals regulatory mechanism for trophoblast cell-fate divergence in human peri-implantation embryo
We studied the transcriptomic dynamics underlying human per-implantation development of trophoblast ...
GSE127916: S6K2 IS A NOVEL TARGET IN MAPKi-RESISTANT NRAS-MUTANT MELANOMA
Melanoma is often driven by NRAS mutations. Although oncogenic NRAS activates MAPK signaling, inhibi...
GSE78003: Multivalent binding of PWWP2A to H2A.Z-marked transcriptional active chromatin regulates mitosis and organ development [RNA-seq]
The essential histone variant H2A.Z affects various DNA-based biological processes by so far not wel...
GSE81367: Myostatin inhibition prevents skeletal muscle pathophysiology in Huntingtons disease mice.
Huntingtons disease (HD) is an inherited neurodegenerative disorder of which skeletal muscle atrophy...
GSE77010: The miR-17~92 microRNA cluster is a global regulator of tumor metabolism
mRNA expression in E-Myc lymphoma cells expressing or lacking miR-17~92 SOURCE: Maxim,N.,Artyomov (m...
GSE73352: Dual function of Med12 in PRC1-dependent gene repression and ncRNA-mediated transcriptional activation
Mediator is regarded a general co-activator of RNA-Polymerase II dependent transcription but not muc...
GSE148234: RNAseq of CD8+ T cells memory subsets in human peripheral blood
RNAseq of CD8+ T cells memory subsets in human peripheral blood SOURCE: Marcus Buggert (marcus.bugge...
GSE156708: FBXO11 is a candidate tumor suppressor in the leukemic transformation of myelodysplastic syndrome
This experiment is assocaited with a publication defining a tumor supressor role of FBXO11 in the tr...
GSE98710: An in vitro human liver model by iPSC-derived parenchymal and non-parenchymal cells
We have established culture systems to generate liver progenitor cells (LPCs), liver sinusoidal endo...
GSE77453: Isoform switch of TET1 regulates DNA demethylation and mouse development
The methylcytosine oxidase TET proteins play important roles in DNA demethylation and development. H...
GSE105095: Human CXCR5+CD45RA-CD8+ T cells subset in follicular lymphoma
We demonstrate that CXCR5+CD8+ T cells are a distinct human T-cell subset that homes to follicles an...
GSE88953: Impact of hypothermic preservation of mouse kidney resident immune cells
With the growing interest in studying primary tissue samples by single cell transcriptome analysis, ...
GSE104887: N-cadherin expressing bone and marrow stromal progenitor cells maintain reserve hematopoietic stem cells
Regulation of hematopoietic stem cells (HSCs) by bone marrow (BM) niches has been extensively studie...
GSE72537: Partial loss of Rpl11 in adult mice recapitulates Diamond-Blackfan anemia (DBA) and promotes lymphomagenesis
Diamond-Blackfan anemia (DBA) is characterized by anemia and cancer susceptibility, and is caused by...
GSE141535: Transcriptome profile of Primary Human Lung Fibroblasts (Cystic Fibrosis vs. Non-Cystic Fibrosis) [2D]
The transcriptomic profile of cystic fibrosis human lung fibroblasts was compared to normal human lu...
GSE136809: Inactivation of the nuclear interacting SET domain protein 1 (NSD1) impairs GATA1-regulated erythroid differentiation and causes erythroleukemia. KO experiement, mRNASeq whole bone-marrow.
Bone marrow of lin-neg erythroblasts either diseased Nsd1-/- or healthy Nsd1fl/fl SOURCE: Robert Iva...
GSE134770: Expression profiles of satellite cells and alpha7Sca1 cells in mdxITGAM-DTR mice
We took advantage of a dystrophic mouse model of transient macrophage-depletion, mdxITGAM-DTR mice, ...
GSE120395: Regulatory T cell depletion promotes oncogenic Kras driven pancreatic tumorigenesis.
Regulatory T cells (Treg) are common in the tumor microenvironment in both human pancreatic cancer a...
GSE77383: Transcriptomic profiling discloses molecular and cellular events related to neuronal differentiation in SH-SY5Y cells
Human SH-SY5Y neuroblastoma cells are widely utilized in in vitro studies to dissect out pathogeneti...
GSE73357: Heterogeneous ribosomes exist and selectively translate distinct subpools of mRNAs in stem cells
Emerging studies have linked the ribosome to more selective control of gene regulation. However, an ...
GSE115831: Pancreatic cancer-derived exosomes induce apoptosis of T lymphocytes through the p38 MAPK signal transduction pathway
Pancreatic cancer is the fourth most lethal malignancy, which is characterized by poor immunogenicit...
GSE76838: Targeted deletion of circadian clock gene Arntl in the nephron results in dysregulation of diverse metabolic pathways
The circadian clock controls a wide variety of metabolic and homeostatic processes in a number of ti...
GSE76749: The Histone Methyltransferases MLL1 and DOT1L Cooperate with Meningioma-1 to Induce AML [Mouse Mll1 ko RNA-seq]
Purpose: To characterize transcriptional changes associated with homozygous inactivation of Dot1l or...
GSE77081: Transcriptome in control, Fzd3 and Celsr3 mutant embryonic mouse cortex
We compared the transcriptome in E16.5 embryonic mouse cortex isolated by microdissection, in contro...
GSE76608: Expression profiling of MCF-7 cells with 10nM treatment of TCDD
The aryl hydrocarbon receptor (AHR) is a ligand-activated transcription factor that is regulated by ...
GSE92322: circRNA-sequencing
circRNA sequencing for 10 samples. SOURCE: chun luo (chunluo_czhsp@126.com) - changzheng hospital
GSE130430: The Developmental Heterogeneity of Human Natural Killer Cells Defined by Single-cell Transcriptome
The heterogeneity of human NK cells has not been fully-defined. Using single-cell RNA-sequencing tec...
GSE130542: Rapid Irreversible Transcriptional Reprogramming in Human Stem Cells Accompanied by Discordance between Replicaion Timing and Chromatin Compartment (RNA-Seq).
This study demonstrates the relationship between replication timing, transcription and chromatin com...
GSE131411: Whole blood transcriptome analysis of Septic shock and Cardiogenic shock patients over one week of ICU stay
Circulatory shock affects approximately one-third of all patients in the Intensive Care Unit (ICU) a...
GSE79147: IGF2BP3 controls cancer cell invasiveness by modulation RISC function
The goal of this study was to determine IGF2BP3 regulation of RNA targets in human pacreatic ductal ...
GSE76647: The effect of Foxc1 deficiency on undifferentiated and differentiated human primary keratinocytes
In this study, we used a RNA-sequencing (RNA-seq) approach to analyze the whole transcriptomes of hu...
GSE77997: Quantitative Analysis of Notch mutant (Notch1&2-null, Psen1&2-null, RBPjk-null) and wild-type hair follicle transcriptomes by NGS
The goals of this study is to test whether NICD presence protects the RBPjk-null Hair Follicles by a...
GSE78747: GRN knockout, sorted brain cells
1 year old mice were perfused and brains were dissociated. Cells were fixed, immunolabeled and FACS ...
GSE76279: CXCR5+ Follicular Cytotoxic T cells Control Viral Infection in B Cell follicles
Lymphocytic Choriomeningitis Virus (LCMV) specific CD8+ T cells (P14) were transferred into congenic...
GSE79183: Changes in RNA expression in human oral cavity carcinoma cells as a result of LDB1 reduction
The study was designed to identify differential expressed genes between human oral cavity carcinoma ...
GSE76752: Transcriptome profiling in knock-in mouse models of Huntington's disease. [gonadal adipose mRNA]
Huntington's disease (HD) is an autosomal dominant neurodegenerative disorder that is characterized ...
GSE76565: Characterization of transcriptomic profile of ulcerated and intact stomach epithelium
Purpose: To explore the processes and mechanisms that are up/downregulated following ulceration of t...
GSE110999: RNA sequencing of B cell subsets (CD11c hi IgD+ B cells, CD11c hi IgD- B cells, Memory B cells and Nave B cells) from healthy subjects and subjects with Systemic lupus erythematosus (SLE) or Rheumatoid arthritis (RA)
CD11c+ B cells (IgD+ and IgD-) are pathogenic B cells expanded in autoimmune disease. The purpose of...
GSE73381: Single cell RNA-Seq of Hira-KO and control MII oocytes [Zp3-Cre]
The integrity of chromatin, which provides a dynamic template for all DNA-related processes in eukar...
GSE148263: The ubiquitin ligase TRIM37 controls cancer-specific vulnerability to PLK4 inhibition
We show synthetic lethality between PLK4 inhibition-mediated centrosome loss and the overexpression ...
GSE110678: Genome-wide effect of constitutive IFN-signaling
Using wild type mice and mice deficient for either IFNb1 or IFN-receptor, we analysed the effect of ...
GSE141885: RNAseq of cecum content of gnotobiotic mice
We analyze differential gene expression of Salmonella Tm M2702 and E. coli Mt1B1 in mice colonized w...
GSE77323: p62, upregulated during preneoplasia, induces hepatocellular carcinogenesis by maintaining survival of stressed HCC-initiating cells
p62/SQSTM1 is a ubiquitin-binding autophagy receptor and signaling protein that accumulates in prem...
GSE109405: Substrate stiffness effects on mRNA and lncRNA expression in mouse embryonic cardiomyocytes
Cardiomyocytes develop abnormal beating patterns and dedifferentiate on substrate with stiffness oth...
GSE45684: RNA-seq alignment to individualized genomes
The source of most errors in RNA sequencing (RNA-seq) read alignment is in the repetitive structure ...
GSE76771: Transcription factor ATF4 directs basal and select gene expression in the unfolded protein response and cholesterol metabolism in liver
We report the physiological role of ATF4 within mouse liver, under basal and ER stress conditions. ...
GSE120380: RNA-seq data of human T cells treated with decidual cell conditioned medium
RNA-seq data of Nave T cells treated with decidual cell conditioned medium. Nave T cells were differ...
GSE144265: Next generation sequencing comparing effects of FFSS, FAK inhibitor and FAK gene deletion. [FFSS]
Purpose: The goals of this study are to compare the effect of FFSS, HDAC4 and HDAC5 gene deletion on...
GSE77441: ZFP57 maintains the parent-of-origin-specific expression of the imprinted genes and differentially affects non-imprinted targets in mouse embryonic stem cells (RNA-seq)
ZFP57 is necessary for maintaining repressive epigenetic modifications at Imprinting control regions...
GSE148336: Molecular mechanisms for Krppel-like factor 13 actions in hippocampal neurons [RNA-seq]
Changes in gene expression in HT22 cells after forced expression of KLF13 for 8 hr were analyzed by ...
GSE79044: Dynamic gene regulatory networks of human myeloid differentiation [RNA-seq]
We utilize gene expression and open chromatin footprinting data to build a gene regulatory network o...
GSE112206: Intratumoral CpG-B promotes anti-tumoral neutrophil, cDC, and T cell cooperation without reprograming tolerogenic pDC
Cancer immunotherapies utilize distinct mechanisms to harness the power of the immune system to erad...
GSE73436: Chronic Activation of 2 AMPK Induces Obesity and Reduces Beta Cell Function
Despite significant advances in our understanding of the biology determining systemic energy homeost...
GSE72664: Sexual Divergence in Microtubule Function: The Novel Intranasal Microtubule Targeting SKIP Normalizes Axonal Transport and Enhances Memory
Activity-dependent neuroprotective protein (ADNP), essential for brain formation, is a frequent auti...
GSE78040 (human): Reversible methylation of m6Am in the 5 cap controls mRNA stability
Internal bases in mRNA can be subjected to modifications that influence the fate of mRNA in cells. O...
GSE109835: RNA-seq analysis of tissues from PKCepsilon defiient mice
Comparison of RNA expression in liver and gonadal fat from female adipose-specific protein kinase C ...
GSE131025: 3D genome architecture orchestrates activity-dependent gene expression in neurons
Post-mitotic neurons in the mammalian brain form synapses that dynamically remodel throughout an ind...
GSE77351: Deep transcriptome analysis of mouse embryonic fibroblast following simultaneous overexpression of Stella, Oct4 and Nanos2 (SON)
We constructed a polycistronic lentiviral vector to overexpress 3 germ cell specific genes (Stella, ...
GSE78968: Effective Detection of Variation in Single Cell Transcriptome using MATQ-seq
We report here a new single-cell RNA-seq assay, Multiple Annealing and dC-Tailing based Quantitative...
GSE79203: Transcriptomic analysis of liver of WT and p21KO mice upon 24h fasting
We profiled total liver mRNA of WT and p21KO mice that were fed ad libitum or fasted for 24 hours S...
GSE130407: Wnt5a and its downstream transcription factor Stat3 are therapeutic targets for diffuse intrinsic pontine gliomas
Understand how Wnt5a depletion affects the growth of diffuse intrinsic pontine gliomas SOURCE: Zhang...
GSE72724: An autoregulatory enhancer controls mammary-specific STAT5 functions
Signal Transducers and Activators of Transcription (STATs) are principal transcription factors downs...
GSE99577: Lipid signaling during neuronal degeneration in KA-treated mice
Lipid homeostasis is dysregulated in several forms of neurodegeneration. Here we examined changes in...
GSE97925: Western diet triggers NLRP3-dependent persistent functional reprogramming of myeloid cells [RNA-Seq]
Here we investigated whether sterile triggers of inflammation induce trained immunity and thereby in...
GSE76717: RNA Expression Profile of Calcified Bicuspid, Tricuspid and Normal Human Aortic Valves by RNA Sequencing [TAV]
Purpose: The molecular mechanisms leading to premature development of aortic valve stenosis (AS) in ...
GSE77482: Pin1 is required for sustained B cell proliferation upon oncogenic activation of Myc
The c-myc proto-oncogene is activated by translocation in Burkitt's lymphoma and substitutions in co...
GSE129593: Alterations of mRNAs in NIH/3T3 cells overexpressing BPV-13 E6
To find out differentially expressed mRNAs in NIH/3T3 cells overexpressing BPV-13 E6 SOURCE: Feng Pa...
GSE78273: Transcriptome profiling in knock-in mouse models of Huntington's disease (liver_mRNA).
Huntington's disease (HD) is an autosomal dominant neurodegenerative disorder that is characterized ...
GSE78801: Heterotypic nucleosomes and PRC2 drive DIPG oncogenesis
Diffuse intrinsic pontine gliomas (DIPG) are characterized by a heterozygous lysine-to-methionine mu...
GSE79013: RNA sequencing identifies differentially expressed genes in adult left ventricles following in utero caffeine exposure during embryonic day 6.5-9.5
Purpose: This study aims to identify the differentially expressed genes in adult left ventricles tre...
GSE79221: Regulation of T-cell receptor signaling induced gene expression by the zinc finger transcription factor Ikaros.
Ikaros is critical in setting the threshold for T-cell activation and proliferation. Here we used ma...
GSE76688: G-quadruplex structures mark human regulatory chromatin
DNA secondary structures are important for fundamental genome functions such as transcription and re...
GSE131526: A composite immune signature parallels disease progression across T1D subjects (RNA-Seq Cohort 0 WB)
Technical replicate testing was performed to determine the measurement precision of each analyte. Pe...
GSE144098: Sexual Dimorphism in Cardiac Transcriptome Associated with a Troponin C Murine Model of Hypertrophic Cardiomyopathy
Heart disease remains the number one killer of women in the US. Nonetheless, studies in women and fe...
GSE77950: Long Non-coding RNA PICSAR Promotes Growth of Cutaneous Squamous Cell Carcinoma by Regulating ERK1/2 Activity
Keratinocyte-derived cutaneous squamous cell carcinoma (cSCC) is the most common metastatic skin can...
GSE79244: RNA-Sequencing of Klf6 silenced oligodendrocytes
We examine the role of Klf6 in oligodendrocyte progenitor cells and determine that Klf6 acts as a gp...
GSE76837: Effects of in vivo expansion of mouse embryonic stem cells
Whe embryonic stem cells are in vitro expanded threir telomereres lengthen, in the absence of geneti...
GSE100276: Epigenetic memory of obesity predisposes to colorectal cancer
Colorectal cancer (CRC) is the third most common cancer worldwide. Obesity is a major risk factor wi...
GSE111556: Alteration in gene expression during reprograming of tumor MSC by gastric cancer cells
We utilized gastric cancer cells (GSC1) to demonstrate subversion of nave Mesenchymal Stem Cells (MS...
GSE75246: LPS and brain inflammation
Normal mice were injected i.p. with LPS or saline. 24h later, perfused brains were dissociated. Cell...
GSE79219: Ikaros regulates gene expression downstream of TCR signaling
The transcription factor Ikaros plays a critical role during lymphocyte differentiation, proliferati...
GSE112396: RNAseq to determine gene expression changes in adipose tissue macrophages (ATM1 and ATM2) and adipocyte progenitors (AP) following cold exposure or FGF21-mimetic antibody administration
Study gene expression changes in M1 and M2 macrophages and APs in visceral adipose tissue in diet-in...
GSE76779: RNA sequencing of FACS purified HFSCs, total epidermal cells and cultured HFSCs
We sequenced mRNA from HFSCs that were FACS purified (CD34+alpha-6 Integrin+ cells) from p21 mouse e...
GSE78748: RNAseq comparison of WT vs Progranulin KO brain
RNA was extracted from cortex of 1 year old wildtype, heterozygous or homozygous PGRN knockout mice....
GSE83785: Hormone induced repression of genes requires BRG1-mediated H1.2 deposition at target promoters
In this report we have discovered a new function of BRG1 during hormone-mediated gene repression. Th...
GSE74052: Gpr124 is essential for blood-brain barrier integrity in central nervous system disease
Although blood-brain barrier (BBB) compromise is central to the etiology of diverse central nervous ...
GSE112135: Mammalian ISWI and SWI/SNF selectively mediate binding of distinct groups of transcription factors (RNA-seq data sets)
Remodelers define nucleosome composition, presence and position. Mammalian imitation-switch-type (IS...
GSE78497: MRTF/SRF link the cytoskeleton and hedgehog pathway in drug-resistant basal cell carcinomas
We use multi-dimensional genomic analysis using mouse resistant BCCs to identify a non-canonical hed...
GSE78056: Odd skipped-related 1 (Osr1) identifies a population of embryonic fibro-adipogenic progenitors regulating pro-myogenic transcription during limb development
We sequenced total RNAs that were extracted from Osr1-expressing cells isolated by FACS-sorting from...
GSE89660: Comparison of gene expression patterns of two SCLC genetically-engineered mouse models; Rb1 floxed, Trp53 foxed, LSL-Myc T58A-IRES-Luc vs. Rb1 floxed, Trp53 foxed, RPR2 (p130) floxed
Myc expression cooperates with Rb1 and Trp53 loss in mouse lungs to generate rapid, aggressive, high...
GSE78917: Genome-wide expression profiles from mouse Phf13 wildtype and knockout testes
We report expression profiles for mouse testes carrying a Phf13 knockout in comparison to wildtype t...
GSE92304: The NANCI-Nkx2.1 gene duplex buffers Nkx2.1 expression to maintain lung development and homeostasis
A subset of long-noncoding RNAs (lncRNAs) are spatially correlated with transcription factors (TFs) ...
GSE78078 (human): miR-126 Orchestrates an Oncogenic Program in B-Cell Precursor Acute Lymphoblastic Leukemia
MicroRNA (miRNA)-126 is a known regulator of hematopoietic stem cell quiescence. We engineered murin...
GSE76857: Direct Induction of Neural Progenitor Cells Transiently Passes Through a Partially-reprogrammed State
During giNPC induction process, cell samples were harvested at various induction days including name...
GSE141985: RNA-seq in mouse duodenum
Characterization of duodenal gene expression after vitamin D analogs administration SOURCE: Gilles L...
GSE84804: Temporal-spatial Establishment of Initial Niche for the Primary Spermatogonial Stem Cell formation is Determined by an ARID4B Regulatory Network (RNA-Seq)
The primary spermatogonial stem cells (SSCs), which arise from gonocytes during neonatal development...
GSE152388: Transcription profiling of intestinal changes in APC deficient intestines following oncogenic Kras activation
Loss of APC with or without KRAS activation under the control of VilCreER SOURCE: Karen PickeringSan...
GSE144208: Enhanced deoxysphingobase production in HSN1 results in sensory nerve toxicity through deficits in both cell autonomous and axoglial signalling, ameliorated by serine treatment
Hereditary sensory neuropathy type 1 (HSN1) is caused by mutations in either the SPTLC1 or SPTLC2 su...
GSE90486: Dissecting immune circuits by linking CRISPR pooled screens with single cell RNA-seq [SET1]
In multicellular organisms, dedicated regulatory circuits control cell-type diversity and response. ...
GSE105155: TET2 regulates the neuroinflammatory response in microglia
Epigenetic mechanisms regulate distinct aspects of the inflammatory response in various immune cell ...