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Sequencing-based assays page 26
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GSE113827: TCR-MHC Interaction Strength Defines Trafficking and Resident Memory Status of CD8 T cells in the Brain.
It is unknown how peptide-activated CD8 T cells that harbour different and distinct T cell receptors...
GSE119707: C/EBP regulates the M2 transcriptome in -adrenergic-stimulated macrophages
We screened RNAseq results from RAW 264.7 macrophages for previous empirically-defined M2 genes in t...
GSE48252: Inducing pluripotency from mouse somatic cells by small-molecule compounds [RNA-Seq]
Pluripotent stem cells can be induced from somatic cells, providing an unlimited cell resource for r...
GSE45703: Tau depletion prevents Ras/ERK-mediated excitotoxic immediate early gene activation and brain damage in stroke
Stroke is a leading cause of death1. The majority are ischemic strokes resulting from acute focal br...
GSE56248: A Smooth Muscle-Like Origin for Beige Adipocytes
A comparison of the translating RNAs in UCP1-positive cells from the classical BAT, the inguinal WAT...
GSE123285: ARID1A and the BAF complex are determinants of breast cancer treatment response [RNA-seq]
Global CRISPR screens provide an unparalleled, longer-term experimental approach for the identificat...
GSE97259: Determination of tRNA aminoacylation levels by high throughput sequencing
Here we develop a high throughput sequencing method that enables accurate determination of charged t...
GSE47121: Improved genome-wide mapping of uncapped and cleaved transcripts in eukaryotesGMUCT 2.0
The advent of high-throughput sequencing has led to an explosion of studies into the diversity, expr...
GSE63634: Epigenomic landscape during organ formation in human early embryos
Here we present the whole genome ChIP-Seq analyses of a wide variety of histone marks, H3K27ac, H3K4...
GSE48419: Gene expression analysis of Ash1l mutant mouse embryonic stem cells.
Using wild type and Ash1l deltaSET mutant embryonic stem cells, here we report differences of gene e...
GSE49843: TRIM28 is essential for erythroblast differentiation in the mouse
We discovered that Trim28 genetic loss in the adult mouse leads to defective immature erythropoiesis...
GSE49581: RNA-Seq characterization of select lincRNA knockout mouse models
It has become clear that long intergenic noncoding RNAs (lincRNAs) are an important layer of genome ...
GSE49669: The Histone H3 Lysine 9 Methyltransferases G9a and GLP Regulate Polycomb Repressive Complex 2-Mediated Gene Silencing [RNA-Seq]
G9a/GLP and Polycomb Repressive Complex 2 (PRC2) are two major epigenetic silencing machineries, whi...
GSE54424: SOX9: a Stem Cell Transcriptional Regulator of Secreted Niche Signaling Factors
Mouse hair follicles undergo synchronized cycles. Cyclical regeneration and hair growth is fueled by...
GSE59622: Genes regulated by the winged helix transcription factor Rfx6 in adult beta cell in the mouse
The goal of this study was to identify genes which are differentiatlly expresesd upon induced inacti...
GSE48785: Global response to chemotherapy-induced apoptosis
Here we use an integrated systems-level examination of transcription, translation, and proteolysis t...
GSE49890: RNA-Seq and expression microarray highlight different aspects of the fetal transcriptome [RNA-Seq]
The second trimester fetal transcriptome can be assessed based on cell-free RNA found within the amn...
GSE44183 (mouse): Genetic Programs in Human and Mouse Early Embryos Revealed by Single-Cell RNA-Sequencing
Mammalian preimplantation development is a complex process involving dramatic changes in the transcr...
GSE42880: MeCP2 binds to 5hmC enriched within active genes and accessible chromatin in the nervous system
The high level of 5-hydroxymethylcytosine (5hmC) present in neuronal genomes suggests that mechanis...
GSE50535: RNA-seq melanoma
Using a chromatin regulator-focused shRNA library, we found that suppression of sex determining regi...
GSE119101: Functional role of SLIT2 and ROBO1 in trophoblasts
Analysis of the effect of SLIT2 and ROBO1 siRNA experiment SOURCE: Antti Haapalainen (antti.haapalai...
GSE138242: The Obese Adipocyte
We report the application of high-throughput sequencing to study the changes in the transcriptional ...
GSE116977: Inter-tumoral heterogeneity in SCLC is influenced by the cell-type of origin
We describe two different routes of SCLC metastatic progression SOURCE: Dian Yang (dian.yang@ucsf.ed...
GSE49929: The transcription factor IRF4 is essential for T cell receptor affinity mediated metabolic programming and clonal expansion of T cells [RNA-seq]
We demonstrate that transcription factor IRF4 is induced in a T cell receptor (TCR) affinity-depende...
GSE54291: Differential requirement for Nfil3 during NK cell development
Natural killer (NK) cells can be grouped into distinct subsets that are localized to different organ...
GSE121384: Verification and rectification of cell type-specific splicing of a Seckel syndrome-associated ATR mutation using iPS cell model
Seckel syndrome (SS) is a rare spectrum of congenital severe microcephaly and dwarfism. One SS-causa...
GSE50763: Thrombin inhibition with dabigatran etexilate in C57BL/6 mice fed a high fat diet
Purpose: Determine the impact of thrombin inhibition with dabigatran etexilate on high fat diet-indu...
GSE95437: The transcription start site and enhancer landscape of the descending colon in inflammatory bowel disease
Inflammatory bowel disease (IBD) is a common and chronic gut disorder, with two subtypes: Crohn's di...
GSE69596: Gene expression analysis of CD4+ and CD4- ILC1 subsets by RNAseq
Innate lymphoid cell (ILC) subsets that mirror helper T cells in their effector cytokine profiles ha...
GSE122405: DNA methylation in AgRP neurons regulates voluntary exercise behaviour
Knock out of Dnmt3a in AgRP neurons leads to a sedentary, adiposity-prone adult phenotype associated...
GSE51217: TALEN-based knockout of mir-141 and mir-200c in SK-BR-3 cells
We used transcription activator-like effector nucleases (TALENs) to generate knockout cells for two ...
GSE133160: The oncogenic action of NRF2 depends on de-glycation by Fructosamine-3-kinase (FN3K)
We show that NRF2 activation drives hepatocellular carcinoma development in vivo. Moreover, NRF2 ...
GSE49844: Transcriptomics analysis of gene expression in normal and Smg6 deficient mouse ES cells
RNA was isolated from control and Smg6 deficient ES cells using the TRIzol (Invitrogen) reagent by f...
GSE119191: Human Treg IL-12 stimulation
Human Tregs isolated from PBMCs were cultured in the absence or presence of IL-12 (20ng/ml) for four...
GSE112813: Genome Wide Chromatin Mapping of accessibility (ATAC-seq) and H3K27ac histone modifications in CD56bright and CD56dim natural killer cells
We report the epigenenetic and transcriptional profile of blood natural killer cells. For chromatin ...
GSE49147: Histone Variant H2A.X Plays Novel Roles in Cell Lineage Commitment and Genomic Stability in ESC and iPSC
Herein, we demonstrated that the cell lineage commitment is unexpectedly regulated by the novel func...
GSE56293: Genome-wide expression analysis of young, senescent and p38MAPK-inhibitited senescent human fibroblasts.
We utilized whole genome sequencing of mRNA (RNA-seq) to understand the extent to which the senescen...
GSE51264: Conserved expression of lincRNA during human and macaque prefrontal cortex development and maturation
78 tissue samples from prefrontal cortex (PFC) in human and macaque SOURCE: Zhisong He (zhisong.he@g...
GSE51735: RNA-seq transcriptome profiling of motor neurons (MNs) and surrounding white matter glia (WM) microdissected from pre-symptomatic mouse model of spinal muscular atrophy (SMA)
We report tramscriptome perturbations in MNs and WM of SMA mouse, prior to first morphological and b...
GSE113403: Bulk RNA sequencing of VE-Cadherin+GFP+, VE-Cadherin- GFP+ and VE-Cadherin+GFP- populations from E11.5 miR144/451+/GFP mouse yolk sac.
The aim of the experiment was to compare a newly defined population VE-Cadherin+GFP+ to control popu...
GSE90514: Transcriptomic alterations in fibroblasts from Parkinson's disease patients carrying Parkin mutations
In this study, we evaluate the hypothesis that transcriptome pattern of a cell model of Parkinsons d...
GSE47944: Environmental factors transmitted by aryl hydrocarbon receptor influence severity of psoriatic skin inflammation [RNA-Seq]
Environmental stimuli are known to contribute to psoriasis pathogenesis and that of other autoimmune...
GSE118939: Expression profiling of NRAS knockout in embryonal rhabdomyosarcoma (ERMS) cells
Targeted disruption of NRAS was performed in a stable 381T ERMS cell line harboring tamoxifen induci...
GSE94528: H3B-8800, a novel oral splicing modulator, induces lethality in spliceosome mutant cancers [K562]
Genomic analyses of cancer have identified recurrent point mutations in the RNA splicing factors SF3...
GSE46688: F11R is a novel monocyte prognostic biomarker for malignant glioma [Seq]
Objective:; Brain tumors (gliomas) contain large populations of infiltrating macrophages and recruit...
GSE58663: Molecular Mechanisms of Endothelial Hyperpermeability
Vascular permeability reflects changes in the function of the endothelium, its interendothelial jun...
GSE57694: Expression profiling, Miz1 location analysis and histone modification analysis in 70Z/3 and P6D4 cells
Expression profiling by RNA-Seq was performed on 70Z3 and P6D4 cells as well as ChIP-Seq location an...
GSE51415: Altered Epigenetic Regulation of Homeobox Genes in Human Oral Squamous Cell Carcinoma Cells
To gain insight into the molecular changes during OSCC carcinogenesis, we performed unbiased, whole ...
GSE48878: In vivo transcriptional goverance of hair follicle stem cells by canonical Wnt regulators
Mouse hair follicles undergo synchronized cycles. Cyclical regeneration and hair growth is fueled by...
GSE63647: Macrophage Gene Expression Upon Infection with Anaplasma phagocytophilum in the Presence and Absence of the Tick Salivary Protein SL2
Previously, we observed that a tick salivary protein named sialostatin L2 (SL2) mitigates caspase 1-...
GSE74381: Gene expression profiling of sciatic nerves from Zeb2cKO and control mice
We performed gene expression pofiling of Zeb2cKO and control sciatic nerves and identified significa...
GSE50932: Analysis of gene expression with the Hmga2 allelic series.
In this study, we introduced a series of expression constructs into a mouse lung cancer cell line (4...
GSE56446: E14.5 mouse cortical neurospheres in response to Fezf2 over-expression
RNA Sequencing of E14.5 mouse cortical neurospheres in response to Fezf2 over-expression SOURCE: Loy...
GSE51424 (human): Cell type-specific ribosome profiling in vivo.
We report cell-type specific ribosome profiling in a mouse glioma model. SOURCE: Peter Sims (pas2182...
GSE49379 (mouse): Large-scale multi-species survey of metabolome and lipidome
This dataset was generated with the goal of comparative study of gene expression in three brain regi...
GSE57648: Effect of Rps5 heterozygous deletion on embryonic stem cells transcriptome
Using wild-type and Rps5 heterozygous embryonic stem cells, we isolated RNA from polyribosomal fract...
GSE57561: RNA expression profiling of human mPB or CB-derived CD34+ cells treated with UM171 at different doses
RNASeq data for mPB or CB-derived CD34+ exposed to UM171 SOURCE: Guy Sauvageau Institute for Researc...
GSE48968: Single-cell RNA-seq reveals dynamic paracrine control of cellular variation
Here, we use a microfluidics-based approach to prepare single-cell RNA-Seq libraries from over 1,700...
GSE114012: Identifying dormant cells in colorectal cancer spheroids
Cellular dormancy and heterogeneous cell cycle lengths provide important explanations for treatment ...
GSE54412: Investigation of the role of histone modification propagating activity of GLP
We use ChIP-Seq and RNA-Seq technology to profile the H3K9me2 modification and transcription under d...
GSE71679: Effect of Smyd1 conditional knockout on gene expression in skeletal muscle
Transcriptome analysis by RNA-seq of tibialis anterior muscle from control and Smyd1 myocyte-specifi...
GSE49449: RNA-seq analysis of IL-10 treatment of wildtype and Ptpn1-/- knockout peritoneal macrophages
We report here the deep sequencing of the mRNA from peritoneal exudate cells (macrophages) purified ...
GSE97009: Widespread activation of antisense transcription of the host genome during Herpes simplex virus 1 infection
We show that Herpes simplex virus 1 (HSV-1) induces the expression of about 1000 antisense transcrip...
GSE119769: Impact of Tcf1/Lef1 deficiency on Treg cells
Comparison of transcriptome between control and Tcf1/Lef1-deficient Treg cells SOURCE: Hai-Hui Xue (...
GSE49109: Transcriptional profile in the colon in response to C. rodentium infection.
The identification of Atg16L1 as a susceptibility gene has implicated antibacterial autophagy in the...
GSE43575: A Prader-Willi locus lncRNA cloud modulates diurnal genes and energy expenditure.
Prader-Willi syndrome (PWS), a genetic cause of childhood obesity, is characterized by intellectual ...
GSE115187: Gene expression changes in Ing1- and Gadd45a- single- or double-knockout mouse embryonic fibroblasts
ING1b and GADD45a are nuclear proteins involved in the regulation of cell growth, apoptosis and DNA ...
GSE50499: FMRP-associated MOV10 facilitates and antagonizes miRNA-mediated regulation
The fragile X mental retardation protein FMRP is an RNA binding protein that regulates translation o...
GSE76445: Trascriptome of thyroid cancer-induced macrophages
RNA sequencing data of macrophages after differentiation in the presence of TPC1 thyroid cancer cell...
GSE43526: Co-ordinate inhibition of autism candidate genes by topoisomerase inhibitors [Seq]
Topoisomerases are necessary for the expression of neurodevelopmental genes, and are mutated in some...
GSE47835: Microfluidics facilitated RNA-Seq transcriptome analysis of single mouse embryonic stem cells
Various single cell RNA-Seq technologies have been developed recently. However, most of these techni...
GSE51008: Selective transcriptional regulation by Myc in cellular growth control and lymphomagenesis [RNA-Seq]
The c-myc proto-oncogene product, Myc, is a transcription factor that binds thousands of genomic loc...
GSE49622: Analysis of the Epigenomic and Transcriptional Landscapes during mammalian spermatogenesis [RNA-seq]
Adult germline stem cells (AGSCs) are multifunctional - they must self renew, maintain genome plurip...
GSE45258: RNA-seq analysis of HT-29, MCF10A, and MDA-MB-436 cells
RNA-seq data from HT-29 cells treated with IFN- for 24 hr, MCF10A cells, and MDA-MB-436 cells. SOURC...
GSE115099: Transcriptome sequencing of differentially expressed genes in acne inversa (AI) patients with NCSTN mutation and healthy individuals
To elucidate the relationship between NCSTN mutations and familial AI pathogenesis by investigating ...
GSE56312: 2i induces widespread changes in OCT4, SOX2 and NANOG binding
Mouse embryonic stem cells (mESCs) cultured under standard serum/LIF conditions exhibit heterogeneou...
GSE52514: Differential gene expression in nephron progenitors lacking miR-17~92
Purpose: The goal of this study is to compare the differential expression of transcripts in control ...
GSE54246: Genome-wide analysis of gene expression changes in mouse tongue squamous cell carcinomas induced by 4-nitroquinoline 1-oxide (4-NQO)
We hypothesized that the expression of many genes are dysregulated during oral cancer carcinogenesis...
GSE94534: Retinal degeneration triggers the activation of YAP/TEAD in reactive Mller cells
PURPOSE. During retinal degeneration, Mller glia cells respond to photoreceptor loss by undergoing r...
GSE49047: Overexpression of Dimethylarginine Dimethylaminohydrolase 1 Attenuates Airway Inflammation in Mouse Models of Asthma
Levels of asymmetric dimethylarginine (ADMA), an endogenous inhibitor of nitric oxide synthase, are ...
GSE94827: Inhibiting the oncogenic translation program is an effective therapeutic strategy in multiple myeloma
Multiple Myeloma (MM) is a frequently incurable hematological cancer in which over activity of MYC p...
GSE48048: Gene expression profiling normal murine myeloid cells and myeloid leukemia cells induced by CNTRL-FGFR1
To characterize gene expression changes in AML induced by CNTRL-FGFR1, we used RNA-seq analysis of s...
GSE97471 (mouse): Differentially expressed genes from RNA-Seq and functional enrichment results are affected by the choice of single-end versus paired-end reads and stranded versus non-stranded protocols
We undertook four mammalian transcriptomics experiments to compare the effect of read mapping, featu...
GSE99585: Leucine differentially regulates gene-specific translation in mouse skeletal muscle
Mice received an oral gavage of either leucine or vehicle, and quadriceps muscle were harvested for ...
GSE120807: Genome-wide collaboration of canonical and non-canonical STAT1 complexes with NF-B to control signal integration between Interferons and TLR4 in vascular and immune cells [RNA-seq]
Atherosclerosis is a disease of large and medium-sized muscular arteries and is characterized by vas...
GSE47964: Activation of the aryl hydrocarbon receptor by dioxin during embryonic stem cell differentiation disrupts the expression of homeobox transcription factors that control cardiomyogenesis
The aryl hydrocarbon receptor (AHR) is a ligand activated transcription factor that regulates the ex...
GSE132610: Impact of GDF15 expression of ovarian cancer cell on stroma and Cisplatin responses
We report the RNAseq data from xenografts mouse models generated from human ovarian cancer cell line...
GSE46340: RNA-seq reveals changes in sphingolipid metabolism upon transformation
We sequenced mRNA from three independent pairs of mock and c-SRC transformed mouse embryonic fibrobl...
GSE64016: Single cell RNA-seq data of human hESCs to evaluate Oscope - a statistical pipeline for identifying oscillatory genes in unsynchronized single cell RNA-Seq
Oscillatory gene expression is fundamental to mammalian development, but technologies to monitor exp...
GSE52530: Global analyses of the effect of different cellular contexts on microRNA targeting (RNA-Seq)
RNA-seqs followed by miRNA transfections (miR-124 and miR-155) into four different cell lines( HeLa,...
GSE44674: Gaucher Disease: Transcriptome Analyses Using Microarray or mRNA Sequencing in a Mouse Model Treated with velaglucerase alfa or imiglucerase [RNA-Seq]
The comparative whole genome transcriptome effects of two similar pharmaceuticals, imig or vela, on ...
GSE115136: Next generation sequencing facilitates analysis of the role of PRMT5 in diffuse large B-cell lymphoma (DLBCL)
Whole transcriptome profiling in Diffuse large B cell lymphoma (DLBCL) cells with and wothout PRMT5 ...
GSE51685: Targeted degradation of sense and antisense C9orf72 RNA foci as therapy for amyotrophic lateral sclerosis and frontotemporal dementia (strand specific RNA-seq)
Purpose: The purpose of this experiment is to identify expression changes after ASO-dependent deplet...
GSE119410: Effect of Ankrd31 deficiency in mouse testicular transcriptome
To test if there is any change in transcriptome in Ankrd31+/+ and Ankrd31-/- mice using RNA-seq SOU...
GSE51975: A bioinformatics approach reveals novel mechanisms of the OVOL transcription factors in the regulation of epithelial-mesenchymal cell programming and cancer progression.
We find significant evidence of the OVOL, AP1, STAT1, STAT3, and NFKB1 TFs having important roles in...
GSE52082: Transcriptome-wide discovery of microRNA binding sites in human brain by Ago2 HITS-CLIP [Ago2-miRNA-target mRNA complexes]
Here, seeking to gain insight into the array of transcripts engaged with miRNAs in human brain, we p...
GSE114775: LSD1 regulates the plasmablast transcriptome
To understand the role of LSD1 in B cell differentiation, mice with B cell conditional deletion of L...
GSE50459: mRNA expression profiles of WT and MLL4-/- after MyoD-induced myogenesis
Enhancers play a central role in cell-type-specific gene expression and are marked by H3K4me1/2. Act...
GSE108862: Next Generation Sequencing Analysis of Human Glioblastoma Transcriptomes And Quantitative Analysis of PDGFRA Positive/Negative Human Glioma Cells Transcriptomes
We report the high-throughput profiling of thirteen human glioblastoma and four pairs of panned(pdgf...
GSE94482: Identification of intrinsic growth modulators for intact CNS neurons after injury
Functional deficits persist after spinal cord injury (SCI) because axons in the adult mammalian cent...