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    Results: 1 to 20 of 19991

    1.

    Amlexanox targets the IKK-ɛ/TBK1/NF-κB signaling axis to suppress the epithelial-to-mesenchymal transition and prostate cancer metastasis

    (Submitter supplied) Tumor metastasis is the major cause of death for prostate cancer (PCa) patients. However, the treatment options for metastatic PCa are very limited. Epithelial-mesenchymal transition (EMT) has been reported to be an indispensable step for tumor metastasis and is suggested to associate with acquisition of cancer stem cell (CSC) attributes. Herein we establish a EMT reporter system based on firefly or renilla luciferase reporter driven by promoters of CDH1 and VIM genes. more...
    Organism:
    Homo sapiens
    Type:
    Expression profiling by high throughput sequencing
    Platform:
    GPL20795
    6 Samples
    Download data:
    GEO (TXT), SRA SRP132279
    Series
    Accession:
    GSE110206
    ID:
    200110206
    2.

    Transcriptome analysis using RNA sequencing conducted for wild type (Col-0) and ahl10-1 mutant under control conditions and after 96 h at moderate low water potential (-0.7 MPa)

    (Submitter supplied) RNA sequencing was used to identify genes differentially expressed (DEG) in ahl10-1 mutant compared to Col-0 wild type. Two treatments were analyzed for each genotype: unstressed control and a 96 hour low water potential (-0.7 MPa) treatment. P<0.05 and fold change ≥ 1.25 used as cut off value for DEG. Approximately 2000-3000 genes were found to be significantly up and down-regulated in the wild type stress versus control treatment using . more...
    Organism:
    Arabidopsis thaliana
    Type:
    Expression profiling by high throughput sequencing
    Platform:
    GPL17639
    12 Samples
    Download data:
    GEO (CSV), SRA SRP136536
    Series
    Accession:
    GSE112368
    ID:
    200112368
    3.

    A variant NuRD complex containing PWWP2A/B excludes MBD2/3 and directs HDAC activity to regulate histone acetylation and RNA Pol II dynamics at active genes

    (Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
    Organism:
    Mus musculus
    Type:
    Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing
    Platform:
    GPL19057
    94 Samples
    Download data:
    GEO
    Series
    Accession:
    GSE112114
    ID:
    200112114
    4.

    Nascent transcription of E14, PWWP2AKO, and PWWP2A/B DKO

    (Submitter supplied) Transcriptional regulation by chromatin is a highly dynamic process directed through the recruitment and coordinated action of epigenetic modifiers and readers of these modifications. Using an unbiased proteomic approach to find interactors of H3K36me3, a modification enriched on active chromatin, here we identify PWWP2A and HDAC2 among the top interactors. PWWP2A and its paralog PWWP2B form a stable complex with NuRD subunits MTA1/2/3:HDAC1/2:RBBP4/7, but not with MBD2/3, p66α/β, and CHD3/4. more...
    Organism:
    Mus musculus
    Type:
    Expression profiling by high throughput sequencing
    Platform:
    GPL19057
    9 Samples
    Download data:
    GEO (BW), SRA SRP136127
    Series
    Accession:
    GSE112112
    ID:
    200112112
    5.

    Transcriptome sequencing of Wild-type and psmb11-/- thymic epithelial cells

    (Submitter supplied) Purpose: as regulator of protein degradation, proteasomesregulate pratically all cellular functions. We assume that psmb11 specific expression by cortical thymic epithelial cells (cTECs) could have far reaching effect on cTECs biology and their involvment in thymocytes' education. Method: We analyzed the poly(A)+ transcriptome of TEC populations by RNA-sequencing (RNA-Seq) in order to gain novel insights into psbm11 functions Results: We demonstrate here that psmb11-deficiency affects the transcription of 450 genes in cortical thymic epithelial cells Conclusion: Our study reveals that one of psmb11 cellular roles could rely on transcriptional regulation and more important, inhibition of mTEC-lineage engagement in cTEC differenciation.
    Organism:
    Mus musculus
    Type:
    Expression profiling by high throughput sequencing
    Platform:
    GPL13112
    16 Samples
    Download data:
    GEO (TXT), SRA SRP061458
    Series
    Accession:
    GSE71268
    ID:
    200071268
    6.

    The miR-96 and RARG signaling axis governs androgen signaling and prostate cancer progression V

    (Submitter supplied) Expression levels of retinoic acid receptor gamma (NR1B3/RARG, encodes RARG), are commonly reduced in prostate cancer (PCa). Therefore we sought to establish the cellular and gene regulatory consequences of reduced RARG expression, and determine RARG regulatory mechanisms. RARG shRNA approaches in non-malignant (RWPE-1 and HPr1-AR) and malignant (LNCaP) prostate models revealed that reducing RARG levels, rather than adding exogenous retinoid ligand, had the greatest impact on prostate cell viability and gene expression. more...
    Organism:
    Homo sapiens
    Type:
    Expression profiling by high throughput sequencing
    Platform:
    GPL11154
    18 Samples
    Download data:
    GEO (TXT), SRA SRP153423
    Series
    Accession:
    GSE117110
    ID:
    200117110
    7.

    High throughput sequencing of human fibroblast WS1 cells after 5 Gy X-ray irradiation

    (Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
    Organism:
    Homo sapiens
    Type:
    Expression profiling by high throughput sequencing
    Platform:
    GPL20301
    6 Samples
    Download data:
    GEO
    Series
    Accession:
    GSE102147
    ID:
    200102147
    8.

    RIP-sequencing reveals that X-ray irradiation infection ELAVL1 binding RNA sites

    (Submitter supplied) We report the application of RIP-sequencing technology for high-throughput profiling of ELAVL1 protein on the effect of lncRNA an mRNA in WS1 cells after 5 Gy X-ray irradiation
    Organism:
    Homo sapiens
    Type:
    Expression profiling by high throughput sequencing
    Platform:
    GPL20301
    4 Samples
    Download data:
    GEO (BED), SRA SRP114661
    Series
    Accession:
    GSE102146
    ID:
    200102146
    9.

    lncRNA and mRNA-sequencing of WS1 cells after 5Gy of X-Ray irradiation

    (Submitter supplied) Purpose: The goal of this study was to compare the lncRNA and mRNA expression profile of human fibroblast WS1 cells between 0 Gy and 5 Gy X-ray irradiation. Methods: lncRNA and mRNA-sequencing of WS1 cells were generated using Illuminal Hiseq4000, RNA-seq reads were mapped to human genome hg19 by hisat2 software. Cuffdiff software was used to analysis the differentially expressed levels of LncRNA and mRNA FPKM. more...
    Organism:
    Homo sapiens
    Type:
    Expression profiling by high throughput sequencing
    Platform:
    GPL20301
    2 Samples
    Download data:
    GEO (XLSX), SRA SRP114660
    Series
    Accession:
    GSE102145
    ID:
    200102145
    10.

    Cxcl12a/cxcr4b and myca signaling override collective cell migration to repair zebrafish pronephros injuries

    (Submitter supplied) Injuries of the zebrafish kidney are rapidly repaired by a migratory response in two to three day-old embryos. While this migratory repair process re-establishes the integrity of the pronephric tubules independently of proliferation, fluid flow, intact cilia, or Wnt signaling, pronephros injuries before 36 hours post fertilization were repaired by a purse string-like mechanism that irreversibly occluded the pronephric tubules. more...
    Organism:
    Mus musculus
    Type:
    Expression profiling by high throughput sequencing
    Platform:
    GPL13112
    18 Samples
    Download data:
    GEO (TXT), SRA SRP114370
    Series
    Accession:
    GSE102044
    ID:
    200102044
    11.

    Transcriptional Basis of Neuronal Diversity in the Mammalian Brain

    (Submitter supplied) Neuronal diversity is a defining feature of the mammalian brain deemed necessary for realizing the complex function of the nervous system. In order to begin to understand the transcriptional basis of this diversity, we collected more than 170 neuronal and non-neuronal cell type-specific transcriptomes defined operationally by transgenic mouse lines and anatomical regions. The dataset indicates that the genes specifically expressed in neuronal cell types are biased toward long genes. more...
    Organism:
    Mus musculus
    Type:
    Expression profiling by high throughput sequencing
    Platform:
    GPL17021
    517 Samples
    Download data:
    GEO (TXT), SRA SRP071868
    Series
    Accession:
    GSE79238
    ID:
    200079238
    12.

    Domain-focused CRISPR-screen identifies HRI as a fetal hemoglobin regulator in human erythroid cells

    (Submitter supplied) Increasing fetal hemoglobin (HbF) levels in adult red blood cells provides clinical benefit to patients with sickle cell disease and some forms of beta-thalassemia. To identify potentially druggable HbF regulators in adult human erythroid cells, we employed a protein kinase-domain focused CRISPR/Cas9-based genetic screen with a newly optimized sgRNA scaffold. The screen uncovered the heme-regulated inhibitor HRI (also known as EIF2AK1), an erythroid-specific kinase that controls protein translation, as an HbF repressor. more...
    Organism:
    Homo sapiens
    Type:
    Expression profiling by high throughput sequencing
    Platform:
    GPL18573
    11 Samples
    Download data:
    GEO (BIGWIG), SRA SRP150355
    Series
    Accession:
    GSE115687
    ID:
    200115687
    13.

    RNA-seq and flow-cytometry of conventional, scalp, and palmoplantar psoriasis reveal shared and distinct molecular pathways

    (Submitter supplied) It has long been recognized that anatomic location is an important feature for defining distinct subtypes of plaque psoriasis. However, little is known about the molecular differences between scalp, palmoplantar, and conventional plaque psoriasis. To investigate the molecular heterogeneity of these psoriasis subtypes, we performed RNA-seq and flow cytometry on skin samples from individuals with scalp, palmoplantar, and conventional plaque psoriasis, along with samples from healthy control patients. more...
    Organism:
    Homo sapiens
    Type:
    Expression profiling by high throughput sequencing
    Platforms:
    GPL11154 GPL20301
    28 Samples
    Download data:
    GEO (TXT), SRA SRP154474
    Series
    Accession:
    GSE117405
    ID:
    200117405
    14.

    Comparative analysis of the root and leaf transcriptomes in Chelidonium majus L.

    (Submitter supplied) To understand the biosynthesis of C. majus BIAs, we performed de novo transcriptome sequencing of leaf and root tissues of C. majus using Illumina high-throughput sequencing technology.
    Organism:
    Chelidonium majus
    Type:
    Expression profiling by high throughput sequencing
    Platform:
    GPL25353
    4 Samples
    Download data:
    GEO (FA, MATRIX), SRA SRP154460
    Series
    Accession:
    GSE117393
    ID:
    200117393
    15.

    Single-cell RNA-seq analysis reveals the progression of human osteoarthritis

    (Submitter supplied) Understanding the molecular mechanisms underlying human cartilage degeneration and regeneration is helpful for improving therapeutic strategies for treating osteoarthritis (OA). Here, we report the molecular programmes and lineage progression patterns controlling human OA pathogenesis using single-cell RNA sequencing (scRNA-seq). We performed unbiased transcriptome-wide scRNA-seq analysis, computational analysis and histological assays on 1464 chondrocytes from 10 patients with OA undergoing knee arthroplasty surgery. more...
    Organism:
    Homo sapiens
    Type:
    Expression profiling by high throughput sequencing
    Platform:
    GPL20301
    34 Samples
    Download data:
    GEO (TXT, XLSX), SRA SRP119687
    Series
    Accession:
    GSE104782
    ID:
    200104782
    16.

    RNA-seq analysis of emf1, lhp1, ebs shl and ebs shl lhp1 transcriptomes in Arabidopsis thaliana

    (Submitter supplied) By RNA deep sequencing, around 11,000 genes were found to be differentially expressed in ebs shl lhp1 compared with wild type, and SHL and EBS, together with LHP1 and EMF1, co-regulate the expression of thousands of gene in Arabidopsis
    Organism:
    Arabidopsis thaliana
    Type:
    Expression profiling by high throughput sequencing
    Platform:
    GPL17639
    15 Samples
    Download data:
    GEO, SRA SRP119040
    Series
    Accession:
    GSE104370
    ID:
    200104370
    17.

    The miR-96 and RARG signaling axis governs androgen signaling and prostate cancer progression

    (Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
    Organism:
    Homo sapiens
    Type:
    Expression profiling by array; Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing
    Platforms:
    GPL11154 GPL10558
    84 Samples
    Download data:
    GEO
    Series
    Accession:
    GSE117182
    ID:
    200117182
    18.

    Zebrafish control and csf1r mutant microglia and brain transcriptomes

    (Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
    Organism:
    Danio rerio
    Type:
    Expression profiling by high throughput sequencing
    Platform:
    GPL18413
    17 Samples
    Download data:
    GEO
    Series
    Accession:
    GSE116217
    ID:
    200116217
    19.

    Zebrafish control and csf1r mutant brain transcriptomes

    (Submitter supplied) Purpose: Identify zebrafish control and csf1r-mutant brain transcriptomes Methods: RNA sequencing was performed on whole brain of control (3x), csf1ra-/- microglia (3x) and csf1ra-/-;b+/- microglia (3x) and csf1ra-/-;b-/- zebrafish. 10-20 million reads per sample were obtained. Reads were mapped to zebrafish genome GRC10. Results: We identified that microglia gene expression was reduced in csf1ra-/-;b+/- and csf1ra-/-;b-/;- mutant transcriptomes.
    Organism:
    Danio rerio
    Type:
    Expression profiling by high throughput sequencing
    Platform:
    GPL18413
    11 Samples
    Download data:
    GEO (XLSX), SRA SRP151255
    Series
    Accession:
    GSE116216
    ID:
    200116216
    20.

    Zebrafish control and csf1r mutant microglia transcriptomes

    (Submitter supplied) Purpose: Identify zebrafish control and csf1r-mutant microglia transcriptomes Methods: RNA sequencing was performed on FACS-sorted control microglia (3x), csf1ra-/- microglia (3x) and csf1ra-/-;b+/- microglia (3x). 10-20 million reads per sample were obtained. Reads were mapped to zebrafish genome GRC10. Results: We identified that csf1ra-/- or csf1ra-/-;b+/- microglia transcriptomes retain most of the microglia gene expression signature but mostly show changes in chemoklines expression.
    Organism:
    Danio rerio
    Type:
    Expression profiling by high throughput sequencing
    Platform:
    GPL18413
    6 Samples
    Download data:
    GEO (XLSX), SRA SRP151254
    Series
    Accession:
    GSE116215
    ID:
    200116215

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