GSE103638 Loss of p53 tumor suppressive function drives chemotherapy resistance in relapsed childhood B-cell precursor ALL
Contributors : Binbing S Zhou ; Renate Kirschner-Schwabe ; Fan Yang ; Malwine J Pogodzinski ; Lijuan Du ; Huiying Sun ; Liang Zhang ; Jana Hof ; Yonggong Zhai ; Cornelia Eckert ; Min LuSeries Type : Genome binding/occupancy profiling by high throughput sequencingOrganism : Homo sapiensResistance to chemotherapy remains a challenge in the treatment of relapsed childhood acute lymphoblastic leukemia (ALL). Using a German B-cell precursor (BCP) ALL relapse cohort, we found that TP53 hot spot mutations, different from non-hot spot mutations but similar to indel and splice site mutations, are particularly associated with on-tre...
Source: GEO: Gene Expression Omnibus - September 1, 2018 Category: Genetics & Stem Cells Tags: Genome binding/occupancy profiling by high throughput sequencing Homo sapiens Source Type: research

GSE104030 Transcriptome profiling of liver samples from WT and AKAP12 KO mice after inducing fibrosis resolution
Contributors : Hye S Lee ; Kyu-Won Kim ; Taekwon SonSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusAKAP12 KO mice showed reduced fibrosis resolution in DDC-induced hepatic fibrosis and resolution model. To compare gene expression profile between genotypes, transcriptome was analyzed by RNA sequencing. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - September 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Mus musculus Source Type: research

GSE104458 Metformin induces chromosome reorganization and changes in gene expression in normal human fibroblasts
We report the effects of metformin treatment on the transcriptome of normal human dermal fibroblasts isolated from foreskin (designated 2DD). We sequenced mRNA from 2 replicates of proliferative (PRO) and 2DD cells treated with two concentrations of metformin (0.5mM and 1.0 mM;5 days exposure). Comparative analyses with PRO transcripts a baseline indicate that fibroblsts exposed to different concentration of metformin result in differnetial transcript profiles. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - September 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Homo sapiens Source Type: research

GSE104890 PAX5 transduction of Pax5-/- pro-B cells
Contributors : Eric DELABESSE ; Nais PRADESeries Type : Expression profiling by arrayOrganism : Mus musculusAfter 5 days in culture with 2ng/ml of IL7, Pax5-/- transduced pro-B cells with PAX5A or PAX5B cDNA were sorted according to their EGFP positivity and total RNA was extracted. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - September 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by array Mus musculus Source Type: research

GSE104896 BDE-47 Transcriptomic Alterations in Human Primary Villous Cytrophoblasts
Contributors : J F Robinson ; M Kapidzic ; S J FisherSeries Type : Expression profiling by arrayOrganism : Homo sapiensTranscriptomic characterization of BDE-47 exposed cultured primary human cytrophoblasts (2nd trimester) undergoing differentiation in vitro. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - September 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by array Homo sapiens Source Type: research

GSE106257 Trancriptome analysis of Agrobacterium tumefaciens C58 cells in the presence of abundant opines
Contributors : Almudena Gonzalez Mula ; Julien LANGSeries Type : Expression profiling by high throughput sequencingOrganism : Agrobacterium tumefaciensPurpose: The goals of this study is to compare the reponse of Agrobacterium tumefaciens C58 in the presence and absence of the two opines nopaline and agrocinopine (more precisely agrocinopine A) to delineated the key-genes associated to opines-response in A. tumefaciens C58. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - September 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Agrobacterium tumefaciens Source Type: research

GSE107624 Global Transcriptome Analysis during Mucociliary Differentiation of Human Nasal Polyp/Nasal Mucosa Basal Stem/Progenitor Cells
Contributors : Borja Callejas-D íaz ; Guerau Fernàndez ; Joaquim MullolSeries Type : Expression profiling by arrayOrganism : Homo sapiensThe aim of this study was to perform a genome-wide transcriptional analysis during in vitro mucociliary differentiation of primary human basal stem/progenitors cells (BSCs) cultured at the air-liquid interface (ALI) system.We used microarrays to detail the global gene expression underlying mucociliary differentiation of human upper airways basal stem/progenitor cells isolated from nasal polyps and control nasal mucosa. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - September 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by array Homo sapiens Source Type: research

GSE108168 Gene Expression profile of brain in SCI rat by MSC intravenous transplantation.
Contributors : Masanori Sasaki ; Kazue Hashimoto-Torii ; Tstutomu OshigiriSeries Type : Expression profiling by arrayOrganism : Rattus norvegicusWe had analysed gene expression profile of brain in SCI rat by MSC. Compared with MSC intravenous and vehicle injection at SCI day3.We used Clariom D / Gene Chip ® Rat Transcriptome Array (RTA 1.0., Affymetrix, Santa Clara, CA, USA). (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - September 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by array Rattus norvegicus Source Type: research

GSE108924 Transcriptome analysis of wild-type and maternal ybx1 mutant zebrafish embryos during early development
Contributors : Jiawei Sun ; Anming MengSeries Type : Expression profiling by high throughput sequencingOrganism : Danio rerioTo study the function of zebrafish Ybx1 during early embryogenesis, we generated maternal ybx1 (Mybx1) mutant using CRISPR/Cas9 and report the transcriptome-wide changes in comparison to wild-type (WT) embryos. Our analysis reveals a dramatic loss of maternal mRNA decay and zygotic genome activation in Mybx1 embryos during maternal-to-zygotic transition. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - September 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Danio rerio Source Type: research

GSE109595 Cellulose perturbation has broad impacts on resource allocation in Arabidopsis thaliana putatively mediated by glycine rich peptides
Contributors : Heather L Wheeler ; Ronald Soong ; Denis Courtier-Murias ; Adolfo Botana ; Blythe Fortier-McGill ; Andre Simpson ; Malcolm M CampbellSeries Type : Expression profiling by high throughput sequencingOrganism : Arabidopsis thalianaThe interplay between plant chemistry and architecture was investigated using a pharmacological approach combined with mutant analysis. Due to the high abundance and essential role of cellulose in plant development and function, it was hypothesized that perturbation of cellulose biosynthesis would have far-reaching effects on plant chemistry and resource allocation. The impact of cell...
Source: GEO: Gene Expression Omnibus - September 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Arabidopsis thaliana Source Type: research

GSE109790 Gender determines susceptibility to methamphetamine cardiomyopathy in mice
In this study, we have created a mouse model of methamphetamine cardiomyopathy that reproduces the chronic, progressive dosing commonly encountered in addicted subjects. We gradually increased the quantity of methamphetamine given to C57Bl/6 mice from 5 to 40 mg/kg over five months. At the fifth month, heart weight was increased, echocardiograms showed a dilated cardiomyopathy and survival was lower in males, with less effect in females. Interestingly, these findings correspond to previous observations in human patients, suggesting greater male susceptibility to the effects of methamphetamine on the heart.Transcriptional a...
Source: GEO: Gene Expression Omnibus - September 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by array Mus musculus Source Type: research

GSE109922 Genetic and epigenetic evolution as a contributor to WT1-mutant leukemogenesis
Contributors : Elodie Pronier ; Richard P Koche ; Ross L LevineSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusGenetic studies have identified recurrent somatic mutations in Acute Myeloid Leukemia (AML) patients, including in WT1 (Wilms ’ tumor gene 1). The molecular mechanisms by which WT1 mutations contribute to leukemogenesis have not yet been fully elucidated. We investigated the role of Wt1 gene dosage in steady state and pathologic hematopoiesis. Wt1 heterozygous loss enhanced stem cell self-renewal in an age-dependent m anner, with increased stem cell function over time a...
Source: GEO: Gene Expression Omnibus - September 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Mus musculus Source Type: research

GSE110363 The circadian gene Nr1d1 in the mouse nucleus accumbens modulates social reward and anxiety-related behavior
In this study, we applied our insights from the maternal state to non-parental adult mice to determine whether decreases in Nr1d1 expression in NAc via adeno-associated viral (AAV) vectors and short hairpin RNA (shRNA)-mediated gene knockdown were sufficient to modulate social reward and mood-related behaviors. We also used microarray analysis of to identify gene expression alterations induced by the lowering of Nr1d1 expression.We used microarrays to evalute the effects of knockdown of mRNA for Nr1d1 in nuclues accumbens on gene expression. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - September 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by array Mus musculus Source Type: research

GSE110953 ChIP-seq of Sgo1p on mitotic chromosomes of Saccharomyces cerevisiae
We report the genome-wide localization of Sgo1p in mitosis of Saccharomyces cerevisiae using ChIP-seq. The high resolution mapping clearly shows a tripartite domain of Sgo1p in each mitotic chromosome. This domain requires the wildtype tension sensing motif (TSM) of histone H3. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - September 1, 2018 Category: Genetics & Stem Cells Tags: Genome binding/occupancy profiling by high throughput sequencing Saccharomyces cerevisiae Source Type: research

GSE111119 Tissue-specific transcriptomic profiling of opium poppy (Papaver somniferum)
Contributors : Thilo Winzer ; Ian GrahamSeries Type : Expression profiling by high throughput sequencingOrganism : Papaver somniferumTo facilitate genome annotation, we performed RNA sequencing of seven different opium poppy tissues (leaf, petal, stamen, capsule, stem, fine root, tap root). (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - September 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Papaver somniferum Source Type: research

GSE111231 Perivascular signals alter global genomic profile of glioblastoma and response to temozolomide in a gelatin hydrogel
In this study, we describe the development of an in vitro artificial perivascular niche (PVN), culturing endothelial and stromal cells along with GBM cells within a methacrylamide-functionalized gelatin hydrogel, in order to examine how the presence of the PVN alters global genomic expression profiles. Using RNA-seq, we demonstrate that the inclusion of perivascular niche cells with GBM cells upregulates genes related to angiogenesis and remodeling, while downregulated genes are related to cell cycle and DNA damage repair. Signaling pathways and genes commonly implicated in GBM malignancy, such as MGMT, EGFR, PI3K-Akt sign...
Source: GEO: Gene Expression Omnibus - September 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Homo sapiens Source Type: research

GSE111328 GATA2 mutant transduction of murine hematopoietic stem cells
Contributors : Eric Delabesse ; Nais PradeSeries Type : Expression profiling by arrayOrganism : Mus musculusGATA2 mutant transduction of murine hematopoietic stem cells (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - September 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by array Mus musculus Source Type: research

GSE111452 Chronic Gene Expression after Traumatic Brain Injury
Contributors : Debbie Boone ; Harris Weisz ; Mike Falduto ; Karen Torres ; Helen HellmichSeries Type : Expression profiling by arrayOrganism : Rattus norvegicusThis project continues our acute TBI studies and initiates chronic studies -- characterizing the temporal genomic profile of the injured brain up to 12 months post-TBI. Thus, the primary objective of this proposal is to determine the long-term effects of traumatic brain injury on gene expression in the hippocampus and cortex, two brain regions known to be particularly vulnerable to TBI. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - September 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by array Rattus norvegicus Source Type: research

GSE111588 Single cell RNA-sequencing of visceral adipose tissue Pdgfr β+ cells
Contributors : R K Gupta ; C HeplerSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusWe previously derived a doxycycline-inducible (Tet-On) lineage-tracing model that allows for the indelible labeling of Pdgfrb-expressing perivascular cells in adipose tissue of adult mice (PdgfrbrtTA; TRE-Cre; Rosa26RmT/mG; herein, “MuralChaser mice”). Prior to exposing animals to doxycyline, all cells within the stromal-vascular fraction (SVF) of adult gonadal WAT (gWAT) express membrane tdTomato from the Rosa26 locus. Following 9 days of exposure to doxycycline-containing chow diet, Cre-me...
Source: GEO: Gene Expression Omnibus - September 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Mus musculus Source Type: research

GSE111772 Affinity-seq of mouse and human ZFY proteins and mouse CTCF
Contributors : Michael Walker ; Timothy Billings ; Petko PetkovSeries Type : Genome binding/occupancy profiling by high throughput sequencingOrganism : Homo sapiens ; Mus musculusThis experiment determines all possible genome-wide binding sites of the proteins of interest (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - September 1, 2018 Category: Genetics & Stem Cells Tags: Genome binding/occupancy profiling by high throughput sequencing Homo sapiens Mus musculus Source Type: research

GSE112361 Gene expression analysis in lungs of Mtb infected Fth+/+ and Fth-/- mice by employing RNA-Seq
Contributors : Adrie J Steyn ; Vineel P ReddySeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusNext-generation sequencing (NGS) has revolutionized systems-based analysis of cellular pathways. The goals of this study is to compare gene expression (RNA-seq) profile between Mtb infected Fth+/+ and Fth-/- mice at 9 weeks post Mtb infection. Gene expression analysis demonstrated an essential role for FtH in mitochondrial function and maintenance of central intermediary metabolism in vivo (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - September 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Mus musculus Source Type: research

GSE112847 Transcriptome profiling of embryonic cortex E18 and primary cortical neuron cultures deficient for the Amyloid Precursor Protein (APP)
Contributors : Pascal Kienlen-Campard ; R émi OpsomerSeries Type : Expression profiling by arrayOrganism : Mus musculusThe amyloid precursor protein (APP), an important player in the Alzheimer ’s disease, regulates neurites formation and synaptic function by mechanisms still not fully understood. Its ability to control gene expression via its intracellular domain (AICD) was proposed to mediate several of these physiological functions. Here, we tested whether putative AICD target genes c ould be transcriptionally modified by the absence of APP in embryonic cortex (E18) and in primary cortical neurons during mat...
Source: GEO: Gene Expression Omnibus - September 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by array Mus musculus Source Type: research

GSE112894 RNA expression in the chick embryonic heart and sino-atrial node
We describe early stages in differentiation of the sino-atrial node or pacemaker cells of the chicken heart. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - September 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Gallus gallus Source Type: research

GSE112920 IL-27 in vaccine elicited cellular immunity
Contributors : Ross M Kedl ; Trevor Blain ; Thomas Danhorn ; Walton KendraSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculus5000 congenically marked (CD45.1) WT or IL-27R-/- OT1 T cells were transferred into WT B6 hosts (CD45.2). One day later, the mice were immunized with ovalbumin (100 µg), PolyIC (40 µg) and anti-CD40 antibody (FGK4.5, 40 µg). 3 days after immunizayion, spleens were harvested and the OT1 T cells isolated by flow sorting based on CD45.1 expression. Each sample is the result of pooling T cells from 3 individual mice. RNA was isolated from the sorted c...
Source: GEO: Gene Expression Omnibus - September 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Mus musculus Source Type: research

GSE112924 Evaluation of cross-platform and interlaboratory concordance via consensus modelling of genomic measurements [HMEPIC array]
Contributor : T J PetersSeries Type : Methylation profiling by genome tiling arrayOrganism : Homo sapiensWe empirically assess the measurement precision and sensitivity of a suite of DNA methylation technologies via a consensus modelling method called the row-linear model. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - September 1, 2018 Category: Genetics & Stem Cells Tags: Methylation profiling by genome tiling array Homo sapiens Source Type: research

GSE113371 Evaluation of cross-platform and interlaboratory concordance via consensus modelling of genomic measurements [Whole RNA-Seq]
Contributors : T J Peters ; C Stirzaker ; J Song ; H J French ; C JanitzSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensWe empirically assess the measurement precision and sensitivity of a suite of gene expression technologies via a consensus modelling method called the row-linear model. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - September 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Homo sapiens Source Type: research

GSE113372 Evaluation of cross-platform and interlaboratory concordance via consensus modelling of genomic measurements
Series Type : Methylation profiling by genome tiling array ; Expression profiling by high throughput sequencing ; Expression profiling by arrayOrganism : Homo sapiensThis SuperSeries is composed of the SubSeries listed below. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - September 1, 2018 Category: Genetics & Stem Cells Tags: Methylation profiling by genome tiling array Expression profiling by high throughput sequencing Expression profiling by array Homo sapiens Source Type: research

GSE113506 Evaluation of cross-platform and interlaboratory concordance via consensus modelling of genomic measurements [HuGene2.0st]
Contributors : T J Peters ; S T BradfordSeries Type : Expression profiling by arrayOrganism : Homo sapiensWe empirically assess the measurement precision and sensitivity of a suite of gene expression technologies via a consensus modelling method called the row-linear model. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - September 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by array Homo sapiens Source Type: research

GSE113746 Brr6 Plays a Role in Gene Recruitment and Transcriptional Regulation at the Nuclear envelope
Contributors : Anne de Bruyn Kops ; Jordan E Burke ; Christine GuthrieSeries Type : Expression profiling by high throughput sequencing ; Genome binding/occupancy profiling by high throughput sequencingOrganism : Saccharomyces cerevisiaeCorrelation between transcriptional regulation and positioning of genes at the nuclear envelope is well established in eukaryotes but the mechanisms involved are not well understood. We provide evidence that Brr6 interacts with chromatin, helping to maintain normal chromatin architecture and transcriptional regulation of certain loci at the nuclear envelope. Specifically, our results showed ...
Source: GEO: Gene Expression Omnibus - September 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Genome binding/occupancy profiling by high throughput sequencing Saccharomyces cerevisiae Source Type: research

GSE114152 Transcriptomic analysis of engineered and improved Pichia pastoris for S-adenosyl-l-methionine (SAM) production
Contributors : Jinagchao Qian ; Xiulin QinSeries Type : Expression profiling by arrayOrganism : Komagataella phaffii GS115 ; Saccharomyces cerevisiaeSAM is the principal methyl group donor in all living organisms, and has attracted much interest in clinical research. We improved SAM production in engineered P. pastoris strain GS115/DS56 by overexpression of the recombinant methionine adenosyltransferase (MAT) gene DS56, and further enhanced SAM prduction in G12-CBS by downregulation of the cystathionine β-synthase (CBS) gene CYS4 with a weak promoter G12. We performed the pairwise transcriptome comparisons between hig...
Source: GEO: Gene Expression Omnibus - September 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by array Komagataella phaffii GS115 Saccharomyces cerevisiae Source Type: research

GSE114399 Temporal profile of germ-free and conventionally raised male mice (DUODENUM and ILEUM)
Contributors : Benjamin D Weger ; Cedric Gobet ; Jake Yeung ; Eva Martin ; Sonia Jimenez ; Aur élie Balvay ; Anne Foussier ; Aline Charpagne ; Chieh-Jason Chou ; Felix Naef ; Frederic GachonSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusGut microbiota and the circadian clock both regulate metabolism. The circadian clock and associated feeding rhythms were shown to impact on the microbial community. However, to what extent gut microbiota reciprocally affect daily rhythms of gene expression and physiology in the host remains elusive. Here, we analyzed the transcriptomes of male ...
Source: GEO: Gene Expression Omnibus - September 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Mus musculus Source Type: research

GSE114400 Temporal profiles of germ-free and conventionally raised female and male mice (LIVER)
Contributors : Benjamin D Weger ; Cedric Gobet ; Jake Yeung ; Eva Martin ; Sonia Jimenez ; Aur élie Balvay ; Anne Foussier ; Aline Charpagne ; Chieh-Jason Chou ; Felix Naef ; Frederic GachonSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusGut microbiota and the circadian clock both regulate metabolism. The circadian clock and associated feeding rhythms were shown to impact on the microbial community. However, to what extent gut microbiota reciprocally affect daily rhythms of gene expression and physiology in the host remains elusive. Here, we analyzed the transcriptomes of male ...
Source: GEO: Gene Expression Omnibus - September 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Mus musculus Source Type: research

GSE114401 Temporal profile of germ-free and conventionally raised male mice (epididymal white adipose tissue (WAT))
Contributors : Benjamin D Weger ; Cedric Gobet ; Jake Yeung ; Eva Martin ; Sonia Jimenez ; Aur élie Balvay ; Anne Foussier ; Aline Charpagne ; Chieh-Jason Chou ; Felix Naef ; Frederic GachonSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusGut microbiota and the circadian clock both regulate metabolism. The circadian clock and associated feeding rhythms were shown to impact on the microbial community. However, to what extent gut microbiota reciprocally affect daily rhythms of gene expression and physiology in the host remains elusive. Here, we analyzed the transcriptomes of male ...
Source: GEO: Gene Expression Omnibus - September 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Mus musculus Source Type: research

GSE114402 Temporal profile of Liver of Cry1/2 double knockout (DKO) mice
Contributors : Benjamin D Weger ; Cedric Gobet ; Jake Yeung ; Eva Martin ; Sonia Jimenez ; Aur élie Balvay ; Anne Foussier ; Aline Charpagne ; Chieh-Jason Chou ; Felix Naef ; Frederic GachonSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusGut microbiota and the circadian clock both regulate metabolism. The circadian clock and associated feeding rhythms were shown to impact on the microbial community. However, to what extent gut microbiota reciprocally affect daily rhythms of gene expression and physiology in the host remains elusive. Here, we analyzed the transcriptomes of male ...
Source: GEO: Gene Expression Omnibus - September 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Mus musculus Source Type: research

GSE114610 Total RNA-Seq of Germ-free (GF) male mice liver injected with growth hormone.
Contributors : Benjamin D Weger ; Eva Martin ; Aline Charpagne ; Chieh-Jason Chou ; Frederic GachonSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusGut microbiota and the circadian clock are both key regulators of the metabolic processes. Although recent evidence points to the impact of the circadian clock on microbiota, gut microbiota effect on diurnal host gene expression remains elusive. A transcriptome analysis of germ-free mice reveals subtle changes in circadian clock gene expression. However, a lack of microbiome leads to liver feminization and alters the expression of male-spec...
Source: GEO: Gene Expression Omnibus - September 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Mus musculus Source Type: research

GSE114611 Total RNA-Seq of Germ-free (GF) male mice liver injected with ghrelin.
Contributors : Benjamin D Weger ; Eva Martin ; Aline Charpagne ; Chieh-Jason Chou ; Frederic GachonSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusGut microbiota and the circadian clock are both key regulators of the metabolic processes. Although recent evidence points to the impact of the circadian clock on microbiota, gut microbiota effect on diurnal host gene expression remains elusive. A transcriptome analysis of germ-free mice reveals subtle changes in circadian clock gene expression. However, a lack of microbiome leads to liver feminization and alters the expression of male-spec...
Source: GEO: Gene Expression Omnibus - September 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Mus musculus Source Type: research

GSE114612 Total RNA-Seq of testis and ovaries of conventional raised (convR) and Germ-free (GF) female mice under ad libitum feeding regimen.
Contributors : Benjamin D Weger ; Eva Martin ; Aline Charpagne ; Chieh-Jason Chou ; Frederic GachonSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusGut microbiota and the circadian clock are both key regulators of the metabolic processes. Although recent evidence points to the impact of the circadian clock on microbiota, gut microbiota effect on diurnal host gene expression remains elusive. A transcriptome analysis of germ-free mice reveals subtle changes in circadian clock gene expression. However, a lack of microbiome leads to liver feminization and alters the expression of male-spec...
Source: GEO: Gene Expression Omnibus - September 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Mus musculus Source Type: research

GSE114613 Total RNA-Seq of primary hepatocytes treated with serum of conventionally raised (convR) and Germ-free (GF) male and female mice.
Contributors : Benjamin D Weger ; Eva Martin ; Aline Charpagne ; Chieh-Jason Chou ; Frederic GachonSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusGut microbiota and the circadian clock are both key regulators of the metabolic processes. Although recent evidence points to the impact of the circadian clock on microbiota, gut microbiota effect on diurnal host gene expression remains elusive. A transcriptome analysis of germ-free mice reveals subtle changes in circadian clock gene expression. However, a lack of microbiome leads to liver feminization and alters the expression of male-spec...
Source: GEO: Gene Expression Omnibus - September 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Mus musculus Source Type: research

GSE115150 LKB1 deficiency in T cells promotes the development of gastrointestinal polyposis
Contributors : Russell G Jones ; Maya C Poffenberger ; Radia M Johnson ; Ekaterina Loginicheva ; Maxim N ArtyomovSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusmRNA expression in CD8+ T cells expressing or lacking LKB1 (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - September 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Mus musculus Source Type: research

GSE115399 Genomic Profiling of BDE-47 Effects on Human Placental Cytotrophoblasts
Contributors : J F Robinson ; M Kapidzic ; S J FisherSeries Type : Methylation profiling by genome tiling arrayOrganism : Homo sapiensCpG methylomic characterization of BDE-47 exposed cultured primary human cytrophoblasts (2nd trimester) undergoing differentiation in vitro. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - September 1, 2018 Category: Genetics & Stem Cells Tags: Methylation profiling by genome tiling array Homo sapiens Source Type: research

GSE115585 Transcriptome of the ansamitocin producer Actinosynnema pretiosum ATCC 31280
Contributors : Xinran Wang ; Xinjuan Ning ; Linquan BaiSeries Type : Expression profiling by high throughput sequencingOrganism : Actinosynnema pretiosumTo explore gene expression and search for the ansamitocin resistant genes during fermentation, total RNA of the ansmitocin high producer NXJ-24 and the wildtype strain ATCC31280 were extracted and sequenced. The gene expression values from day 1 to day 5 of NXJ-24 and day 5 of ATCC31280 were compared. 6 genes were considered most likely to be the ansamitocin transporter genes. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - September 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Actinosynnema pretiosum Source Type: research

GSE115652 Microglial gene expression after TGFb1 treatment in vitro
Contributor : Bj örn SpittauSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusPrimary microglia derived from P0/P1 pus of C57BL/6 mice were cultured under serum-free conditions and were treated with recombinant human TGFb1 (5 ng/ml) for 24 h. RNA was isolated using the TRIzol method. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - September 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Mus musculus Source Type: research

GSE115757 Microglial gene expression after conditional deletion of Tgfbr2 in vivo
Contributor : Bj örn SpittauSeries Type : Expression profiling by arrayOrganism : Mus musculusMicroglial gene expression after conditional deletion of Tgfbr2 in vivo (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - September 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by array Mus musculus Source Type: research

GSE116188 Transcriptional profiling of WM1976 cells with siRNA knockdown of the long non-coding RNA SLNCR
Contributors : Karyn Schmidt ; Carl NovinaSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensRNA-Seq was used to profile transcriptional changes induced by siRNA knockdown of the long non-coding RNA SLNCR (all isoforms). (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - September 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Homo sapiens Source Type: research

GSE116189 Identification of Androgen Receptor binding sites in hormone-depleted melanoma cells
We report the genome wide identification of AR binding sites in hormone-deprived A375 melanoma cell line, with either endogenous levels of the lncRNA SLNCR, or a vector expressing SLNCR1. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - September 1, 2018 Category: Genetics & Stem Cells Tags: Genome binding/occupancy profiling by high throughput sequencing Homo sapiens Source Type: research

GSE116190 Identification of EGR1 binding sites in melanoma cells
We report the genome wide identification of EGR1 binding sites in the A375 melanoma cell line. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - September 1, 2018 Category: Genetics & Stem Cells Tags: Genome binding/occupancy profiling by high throughput sequencing Homo sapiens Source Type: research

GSE116191 Global identification of Androgen Receptor and EGR1 binding sites in melanoma reveals enriched co-binding at genes regulated by the lncRNA SLNCR
Series Type : Expression profiling by high throughput sequencing ; Genome binding/occupancy profiling by high throughput sequencingOrganism : Homo sapiensThis SuperSeries is composed of the SubSeries listed below. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - September 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Genome binding/occupancy profiling by high throughput sequencing Homo sapiens Source Type: research

GSE116421 Gene expression analysis of liver samples at birth
Contributors : Joel N Hirschhorn ; Mary F LopezSeries Type : Expression profiling by arrayOrganism : Mus musculusThe present study aims to characterize the metabolic and transcriptional consequences of Igf2 deficiency in the newborn livers by gene expression analysis, Histological, triglyceride an Pathway Analysis. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - September 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by array Mus musculus Source Type: research

GSE116533 Interaction of soil amoeba Protostelium aurantium with three pathogenic yeasts Candida spp. (here: C. albicans and C. glabrata)
Contributors : Silvia Radosa ; J örg Linde ; Falk HillmannSeries Type : Expression profiling by high throughput sequencingOrganism : Candida albicans ; Planoprotostelium fungivorum ; [Candida] glabrataWe investigated different escape and defense strategies of Candida glabrata and Candida albicans against the natural fungivorous predator Protostelium aurantium using dual RNA-Seq. While C. albicans was found to be very succesfull in preventing from amoeba recognition, C. glabrata in turn, was rapidly taken up but remained undigested with a comparably low transcriptional activity. Trophozoites of the amoeba Protostelium ...
Source: GEO: Gene Expression Omnibus - September 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Candida albicans Planoprotostelium fungivorum [Candida] glabrata Source Type: research

GSE116534 Interaction of soil amoeba Protostelium aurantium with three pathogenic yeasts Candida spp. (here: C. parapsilosis)
Contributors : Silvia Radosa ; J örg Linde ; Falk HillmannSeries Type : Expression profiling by high throughput sequencingOrganism : Candida parapsilosis ; Planoprotostelium fungivorumWe investigated different escape and defense strategies of Candida parapsilosis against the natural fungivorous predator Protostelium aurantium using dual RNA-Seq. Trophozoites of the amoeba Protostelium aurantium were fed with C. parapsilosis and samples for RNA isolation were taken at time points 0 min (control), 30 min and 60 min. At indicated time points samples were shock frozen and used for RNA isolation. C. parapsilosis underwent ...
Source: GEO: Gene Expression Omnibus - September 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Candida parapsilosis Planoprotostelium fungivorum Source Type: research