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Sequencing-based assays page 28
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GSE54133: Gene Regulatory Circuitry of JNK Signaling Identifies Novel Regulators of Epithelial to Mesenchymal Transition
Purpose: The purpose of this study is to investigate role of JNK signaling during EMT.; Method: Tran...
GSE55716: Integrative Genomic and Transcriptomic Analysis Identified Candidate Genes Implicated in the Pathogenesis of Hepatosplenic T-cell Lymphoma
Hepatosplenic T-cell lymphoma (HSTL) is an aggressive lymphoma cytogenetically characterized by isoc...
GSE97033: Cell Type-Specific Chromatin Signatures Underline Regulatory DNA Elements in Human Induced Pluripotent Stem Cells and Somatic Cells
Regulatory DNA elements in the human genome play important roles in determining the transcriptional ...
GSE96715: Time-dependent regulation of cellular programming of monocytes by NCOR2 [RNASeq_TK]
Whole transcriptome profiling (RNA-Seq) of a time kinetics experiment containing human monocyte-deri...
GSE124723: VD3-VDR axis regulates the homeostasis and function of alveolar macrophage [RNA-Seq LPS]
Purpose: To understand the regulation of gene expression of alveolar macrophages by VD3-VDR axis SOU...
GSE54461: Temporal gene expression across osteoblastogenesis.
Purpose: Osteoblast cells mature from a mesenchymal stem cell pool to become cells capable of formin...
GSE61190: Epigenomic profiling of Non-small-cell Lung Cancer (NSCLC) cells with or without Eed
Polycomb repressive complexes (PRC) are frequently implicated in human cancer acting either as oncog...
GSE105436: ICE1 promotes the link between splicing and nonsense-mediated mRNA decay
Identification of RNAs differentially expressed during depletion of ICE1, UPF1 or a non-targeting co...
GSE55502: Unique cell cycle-dependent variations in the pluripotent epigenetic landscape define novel cohorts of temporal expressed bivalent genes during hESCs differentiation
By mapping the genomic enrichments of H3K4me3 and H3K27me3 modifications in pure populations of hESC...
GSE93357: RNA-seq on Tbx5ua Knockdown mice
By comprehensive screening of long non-coding RNAs (lncRNAs) over mouse heart development, we have i...
GSE55195: Ribosome profiling data obtained from HEK293T cells 30 minutes after treatment with arsenite to a final concentration of 40 M
Eukaryotic cells rapidly reduce protein synthesis in response to various stress conditions. This can...
GSE55735: Pri-miRNA identification by generating a Drosha null/conditional-null mouse model.
We report the ability of the Drosha null/conditional-null mouse model to enable the identification o...
GSE124682: Polymerase recycling contributes to transcriptional noise
RNA-seq samples used to examine crosstalk between processes at the 5 and 3 ends of a transgene SOURC...
GSE52016: EZH2 controls mammary differentiation independently of its methyltransferase activity through controlling genomic STAT5 access
Mammary development is characterized by the proliferation and progressive differentiation of alveola...
GSE55113: Expression data from dexamethasone treated mouse embryonic hypothalamic progenitor/stem cells isolated from wild type C57Bl/6 male or female mice
We used RNA-Seq to detail the global program of sexually dimorphic dexamethasone regulated gene expr...
GSE53212: Nanog Independent Reprogramming to iPSCs with Canonical Factors
It has been suggested that the transcription factor Nanog is essential for the establishment of plur...
GSE55370: In vivo proximity labeling and sequencing (IPL-seq) for SNRPN70 in 293T-Rex
This proof-of-principle experiment was designed to demonstrate the feasibility of proximity labeling...
GSE58135: Breast Cancer RNA-seq
RNA-seq was performed on breast cancer cell lines and primary tumors SOURCE: Katherine,E,Varley (kt....
GSE58498: Expression data of wild type and C-DGCR8 KO cones at different timepoints [RNA-seq]
We have analyzed gene expression in cone photoreceptors isolated from wild type and C-DGCR8 (DiGeorg...
GSE69667: A systematic analysis of the time series gene expression in TGF-beta induced EMT by Next-generation sequencing
The goal of this study is to characterize time course gene expression profiles during TGF-beta induc...
GSE81493: An interaction with Ewing's sarcoma breakpoint protein EWS defines the specific oncogenic mechanism of ETS factors rearranged in prostate cancer
ERG activates prostate cancer specific gene expression program by recuriting RNA binding protein EWS...
GSE53489: Cfp1 is required for gene expression dependent H3K4me3 and H3K9 acetylation in embryonic stem cells (RNA-Seq)
Trimethylation of histone H3 lysine 4 (H3K4me3) accumulates at promoters in a gene activity dependan...
GSE55782: Core promoter factor TAF9B controls neuronal gene expression
Purpose: Characterize the role of the coactivator subunit TAF9b during differentiation of embryonic ...
GSE115943: Optimal-transport analysis of single-cell gene expression identifies developmental trajectories in reprogramming II
We collected duplicate samples at the various time points, generated single cell suspensions and per...
GSE60731: Chromatin accessibility profiling of developing cerebellar granule neurons identifies novel neuronal enhancers and reveals a role for Zic transcription factors in neuronal maturation
To identify chromatin mechanisms of neuronal differentiation, we characterized the relationship betw...
GSE61102: Temporal RNA-seq expression profiling of Sox17-medaited XEN conversion of ESCs
The transcription factor Sox17 is expressed in early primitive endoderm-fated cells of the mouse emb...
GSE55744: Comparison of the transcriptional profiles of male E13.5 wild type and L/H-Pgds-/- gonads
The goals of this study are to compare transcriptome profiling of L/H-Pgds-/- gonads to that of WT ...
GSE56076: Next generation sequencing of small RNAs isolated from exosomes in human semen
Preparation of exosomes isolated from semen contain a substantial amount of RNA, mostly from 20 to 1...
GSE87670: Pathogen size alters C-type lectin receptor signaling in dendritic cells to influence CD4 T cell differentiation
A key mechanism to eliminate pathogens from the body is the physical internalization (phagocytosis) ...
GSE123101: TET-catalyzed 5-carboxylcytosine promotes CTCF binding to suboptimal sequences genome-wide
The mechanisms supporting dynamic regulation of CTCF binding sites remain poorly understood. Here we...
GSE122377: Tuberculous Meningitis in Pediatric Patients [CSF]
Cerebrospinal fluid transcriptional profiles in children with tuberculous meningitis (TBM) or other ...
GSE87202: MEF2C regulates cortical inhibitory and excitatory synapses and behaviors relevant to neurodevelopmental disorders
Numerous genetic variants associated with MEF2C are linked to autism, intellectual disability (ID) a...
GSE53506: PRC2 coordinates lineage fidelity and DNA methylation during ESC differentiation (RNA-Seq)
Polycomb Repressive Complex 2 (PRC2) catalyzes histone H3 lysine 27 tri-methylation, an epigenetic m...
GSE125486: Gene Expression Analysis in NIH3T3 cells with control or RPRD1B knockdown
To investigate the role of RPRD1B in regulating gene expression in NIH3T3 cells. SOURCE: Melanie Ott...
GSE99485: Gene expression data from lineage negative c-kit positive sca-1 positive hematopoietic stem cells (LSK, Lin-Sca-1+c-kit+) isolated from Jak2VF/+ vector and Jak2VF/+ Hmga2 mice
The JAK2V617F mutation has been detected in ~50% cases of MF. Elevated expression of high mobility g...
GSE56568: Critical role of transient activation of human endogenous retroviruses during reprogramming toward pluripotency (RNA-Seq)
We recently showed that some human induced pluripotent stem cell (iPSC) clones were defective in neu...
GSE123255: All-trans retinoic acid cooperates with EVI1 to enhance key properties of acute myeloid leukemia stem cells
All-trans retinoic acid (atRA) is highly effective as a therapeutic agent in acute promyelocytic leu...
GSE65515: Expression and DNA methylation data from the peripheral CD4+T cells of newborn, middle-aged and long-lived individuals detected by high-throughput sequencing
To reveal dynamic changes in networks of gene expression and epigenetic regulation during healthy hu...
GSE62967: Constraint and divergence of global gene expression in the mammalian embryo
We profiled genome-wide gene expression of 170 individual mid-gestation (embryonic day 11.5) whole m...
GSE60012: Gender-specific post-natal demethylation and establishment of epigenetic memory
DNA methylation patterns are set up in a relatively fixed programmed manner during normal embryonic ...
GSE94853: RNA-seq of H9-hESC derived human neural stem cells with combinations of mutant IDH1-R132H overexpression, P53 shRNA knockdown and/or ATRX shRNA knockdown
RNA-seq was performed to assess gene expression alterations by the addition of serial oncogenic hits...
GSE129806: Cellular and molecular characterization of multiplex autism in human induced pluripotent stem cell-derived neurons
Background: Autism spectrum disorder (ASD) is a neurodevelopmental disorder with pronounced heritabi...
GSE60066: Tbx3 controls Dppa3 levels to regulate exit from pluripotency towards mesodermal lineage
Tbx3, a member of the T-box family, plays important roles in development, stem cells, nuclear reprog...
GSE60231: RNA-Seq analysis to profile the transcriptome of Bone Marrow Dendritic Cells exposed to different antigen delivery systems
Here we report the analysis of the transcriptome of bone marrow-derived dendritic cells exposed to t...
GSE66917: Leucegene: AML sequencing (part 4)
RNA sequencing of human leukemia SOURCE: Guy Sauvageau Institute for Research in Immunology and Canc...
GSE57804: Aorta- and liver-specific ERalpha binding patterns and gene regulation by estrogen
Estrogen has vascular protective effects in premenopausal women and in women under 60 receiving horm...
GSE57043: Dicer knockout NSCLC RNAseq and miRseq
Dicer knockout NSCLC mRNAseq profiles the transcriptome, Dicer knockout NSCLC miRseq profiles the mi...
GSE59765: EGFR and MEK pathway signature RNA-Seq datasets
EGFR and MEK pathways were activated alone or in combination in human mammary epithelial cells. We p...
GSE60065: Chronic Myeloid Leukemia (CML), induced pluripotent stem cell (iPSC)-derived lin-CD34+CD45+ (iCD34) cell population
Analysis of lin-CD34+CD45+ (iCD34+) cell population from two normal bone marrow-derived (BM1K and BM...
GSE52619: Deletion of KDM2B DNA-binding domain affects RING1B and SUZ12 occupancy
The histone lysine demethylase protein, KDM2B, associates with the PCGF1/PRC1 complex and binds to n...
GSE57967: LincRNA-p21 Blocks Somatic Cell Reprogramming by Sustaining H3K9me3 and CpG Methylation at Pluripotent Gene Promoters
Through expression profiling and functional screening we have identified the large intergenic non-co...
GSE60833: Dynamics of the human skeletal muscle transcriptome in response to exercise training - part 2
In the present study 23 participants completed three months of supervised aerobic exercise training ...
GSE59725: RNA sequencing of monocytes and microglia from mice with experimental autoimmune encephalomyelitis illustrates a changing phenotype with disease course
The role of microglia and infiltrating monocytes in experimental autoimmune encephalomyelitis (EAE) ...
GSE110868: Identification and validation of GPD1 as an essential cancer stem cell specific target in glioblastoma (RNA-seq: Gpd1 KO)
Cancer stem cells (CSCs) are attractive targets for cancer therapy, however, little is known about h...
GSE97047: Wound regeneration deficit in rats correlates with low morphogenetic potential and distinct transcriptome profile of epidermis
We report whole tissue transcriptomes from rat and mouse wounds, as well as rat inter-follicular epi...
GSE95811: Type 2 Innate Lymphoid Cells Treat and Prevent GI Tract GvHD Through Enhanced Accumulation of Myeloid Derived Suppressor Cells
Transcriptome analysis of in vitro expanded murine type 2 innate lymphoid cells SOURCE: Jonathan,S,S...
GSE127904: Systematic characterization of epigenetic modifying enzymes identifies KDM3B as a key regulator in castration resistant prostate cancer
Androgen deprivation therapy (ADT) is the standard care for prostate cancer patients who fail surger...
GSE55699: Host genomic regions susceptible to damage during H. pylori infection
We identify here host genomic regions that are more likely to be damaged during an infection with th...
GSE121093: Vitamin C Promotes Apoptosis in Breat Cnacer Cells by Increasing TRAIL Expression
In this study we show that ascorbate (vitamin C) shifts the transcriptome of MDA-MB-231 cells and in...
GSE58733: Sexually dimorphic gene expression emerges with embryonic genome activation and is dynamic throughout development (RNA-seq)
As sex determines mammalian development, understanding the nature and developmental dynamics of the ...
GSE119149: Acquisition of a hybrid E/M state is essential for tumorigenicity of basal breast cancer cells
Using the recently described CD104+/CD44hi antigen combination we demonstrate that tumorigenicity de...
GSE56796: CORTECON: A Temporal Transcriptome Analysis of In Vitro Human Cerebral Cortex Development From Human Embryonic Stem Cells
Many neurological and psychiatric disorders affect the cerebral cortex, and a clearer understanding ...
GSE60101: Chromatin state dynamics during blood formation (RNA-Seq)
We develop a new ChIpseq method (iChIP) to profile chromatin states of low cell number samples. We u...
GSE77133: Genome-wide sequencing of hippocampal 5-hydroxymethylcytosine links plasticity genes to acute stress
We used an established chemical labeling and affinity purification method coupled with high-throughp...
GSE57299: Transcriptome data of CD34+ human cord blood-derived cell treated with UM171, SR1 or both
mRNA profiling of CD34+ human cord blood-derived cell treated with UM171, SR1 or both SOURCE: Guy Sa...
GSE55009: Paternal poly(ADP-ribose) metabolism modulates retention of inheritable sperm histones and early embryonic gene expression
To achieve the extreme nuclear condensation necessary for sperm function, most histones are replaced...
GSE133863: Creld1-deficient CD4+ T cells under homeostatic condition and CD3/CD28 stimulation
Transciptome profiling of sorted naive CD4+ T cells from control or Creld1 conditional KO mice (CD4-...
GSE62689: RNA-sequencing of unstressed and pressure-overloaded C57 mouse hearts with single or combined ablation of PKCdelta and PKCepsilon
Combinatorial ablation of the major cardiac-expressed novel protein kinase C isoforms, PKCdelta and ...
GSE120070: CDK12 catalytic activity is rate-limiting for RNAPII processivity on core DNA replication genes and G1/S progression (3' RNA)
In this study we characterized the importance of CDK12-kinase activity in cell cycle regulation, usi...
GSE56787: DUX4-induced gene expression is the major molecular signature in FSHD skeletal muscle
Facioscapulohumeral dystrophy (FSHD) is caused by decreased epigenetic repression of the D4Z4 macros...
GSE56638: Deep sequencing reveals cell-type specific patterns of single cell transcriptome variation
We present high quality deep read-depth single cell RNA sequencing for 91 cells from five mouse tiss...
GSE57147: DNA-damage induced differentiation of leukemic cells as an anti-cancer barrier
Here we show that the histone methyltransferase MLL4 (Kmt2d) is required for stem cell activity and ...
GSE128087: Differential gene expression between wild type and Pax9-null pharyngeal arch tissue
The aim of this study was to identify differentially expressed genes within the pharyngeal arches of...
GSE52809: Poly(A)-tail profiling reveals an embryonic switch in translational control
Poly(A) tails enhance the stability and translation of most eukaryotic messenger RNAs, but difficult...
GSE61375: Ribosome profiling upon inhibition of eIF4A
Ribosome profiling of MDA-MB-231 cells treated with Silvestrol to monitor transcriptome wide, eIF4A-...
GSE116463: Inhibition of Hepatocellular Carcinoma Progression by Forced Metabolic Re-Programming
Using two different mouse models of liver cancer, we have recently shown that the commonly observed ...
GSE52464: Epigenetic and transcriptional landscapes of Dnmt3a-deficient olfactory sensory neurons
During differentiation, neurons experience a reorganization of DNA modification patterns within thei...
GSE124724: VD3-VDR axis regulates the homeostasis and function of alveolar macrophage [RNA-Seq]
Purpose: To understand the regulation of gene expression of alveolar macrophages by VD3-VDR axis SOU...
GSE67250: Integration of genome-wide DNA methylome and transcriptome of human intestinal fibroblasts reveals novel candidate gene signatures in Crohns disease-associated fibrosis
Tissue fibrosis is a serious complication of Crohns disease (CD) as well as of a variety of other co...
GSE59288: Disruption of human-specific synaptogenesis program in autism [RNA-seq]
To test the connection between the molecular mechanisms underlying autistic disorder and human cogni...
GSE61444: Next Generation Sequencing Facilitates Quantitative Analysis of Wild Type and Jmjd6-/- Thymic stromal Transcriptomes
The goals of this study are to comprehensively identify genes controlled by Jmjd6 in the thymic stro...
GSE62056: EZH2 inhibitor efficacy in non-Hodgkin lymphoma does not require suppression of H3K27 mono-methylation [RNA-Seq]
Here we report the discovery of highly potent and selective EZH2 small molecule inhibitors, their va...
GSE115858: Transcriptional profiling of mouse plasma cells (population RNA-Seq)
CD138-high plasma cell subsets were analyzed by RNA-sequencing to identify gene expression differenc...
GSE56977: A high resolution sequencing and modeling identifies distinct dynamic RNA regulatory strategies
To monitor the relative regulatory contributions of RNA production, processing and degradation, we s...
GSE57148: Characterizing gene expression in lung tissue of COPD subjects using RNA-seq
We analyzed gene expression profiling of lung tissue to define molecular pathway of COPD using recen...
GSE58025: Aldh1b1 controlled timing of pancreas specification is important for cell functionality and glucose homeostasis in the adult.
Maintenance of normal glucose homeostasis is disturbed in diabetes. In the cell, this involves a gl...
GSE57803: Gene Expression Signature in Adipose Tissue of Acromegaly Patients
OBJECTIVE: Acromegaly is a rare endocrine disorder with excess growth hormone (GH) production. This ...
GSE130985: Comparison between THP-1 cells obtained from either ATCC or DSMZ biorepository
THP-1 cells obtained from ATCC or DSMZ were compared for their expression of MHC-I, their HLA type a...
GSE56127: Ribosome stalling induced by mutation of a CNS-specific tRNA causes neurodegeneration
In higher eukaryotes, the large numbers of nuclear-encoded tRNA genes partially ensure the robustnes...
GSE58453: Next Generation Sequencing of Wild-Type FVB/NJ Mouse Primary Cardiomyocyte and Cardiac Fibroblast Polyadenylated RNA and small RNA
Cells from three adult, wild-type, FVB hearts were separated into cardiomyocyte and nonmyocyte fract...
GSE62909: SOX15 governs a transcriptional program in human esophageal stratified epithelium and in a subset of esophageal adenocarcinomas
We identified spatially restricted transcription factors and found SOX15 expression confined to stra...
GSE55280: mRNA sequencing of two brain regions (prefrontal cortex and hippocampus) and left myocardial tissue in mice with chronic heart failure vs. sham-operated control mice
After induction of ischemic chronic heart failure (CHF), mice exhibited depression-like behavior, in...
GSE57231: Detained introns are novel, widespread class of posttranscriptionally-spliced introns
Removal of introns by pre-mRNA splicing is a critical and in some cases rate-limiting step in mammal...
GSE121808: Enhancer associated long non-coding RNA transcription and immune gene regulation in experimental models of rickettsial infection
Recent discovery that much of the mammalian genome does not encode protein-coding genes (PCGs) has b...
GSE56902: Next-Generation Sequencing Identifies Differentially Expressed Genes in Embryonic Hearts Following Caffeine Treatment
Purpose: This study aimed to identify differentially expressed genes including alternative splice va...
GSE70108: Next Generation Sequencing Facilitates Quantitative Analysis of Wild Type, DDX5 knockout, RORc knockout, RmrpG262T knockin T helper 17 cell Transcriptomes [RNA-seq]
Purpose: The goals of this study are to compare in vitro polarized T helper 17 cell transcriptome pr...
GSE84922: SALL4 ensures oocytes maturation by modulating DNA methylation and histone modifications (RNA-Seq)
Splat-like 4 (Sall4) plays important roles in maintaining pluripotency of embryonic stem cells and i...
GSE57984: Molecular consequences of Dlx3 deletion in mouse enamel organ as determined by RNASeq analysis
DLX3 is a homeodomain transcription factor involved in ameloblast differentiation and enamel formati...
GSE57419: Genome-wide analysis of next generation sequencing for Lsh+/+ and Lsh-/- mouse embryonic fibroblasts
To examine the relationship of reduced CG methylation and gene expression in Lsh KO MEFs, we compute...
GSE116771: Transcriptome analysis of mouse Cnot6l-/- preovulatory oocytes (GV), ovulated eggs (MII), and 1-cell zygotes
We profiled transcriptomes from Cnot6l deadenylase knock-out mouse GV oocytes, MII eggs and 1-cell z...