GSE90785 Reconstitution of the human pancreatic niche stimulates differentiation of hESCs into beta cells and reveals new signals for pancreatic endocrine cell maturation
Contributors : Diane Yang ; Jolanta Chmieloweic ; Marissa A ScavuzzoSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensRNA-seq was performed for hESC-derived endocrine progenitors (EPs) treated with WNT5A for short-term (12h) and long-term (5 days) to investigate the downstream targets of WNT5A in EPs. Sequencing of untreated cells and those treated with WNT5A for 12h, which are at EP stage, and for 5 days, which are at beta cell stage, allowed for observation of developmental changes during in vitro differentiation. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - June 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Homo sapiens Source Type: research

GSE94571 Impact of rex delation on the transcriptome of Streptococcus pneumoniae D39
In this study, we investigated the transcriptomic response of Streptococcus pneumoniae D39 to NADH. Transcriptome comparison of the D39 wild-type grown in chemically-defined medium (CDM) with 0 mg/ml NADH to 0.5 mg/ml NADH revealed elevated expression of various genes/operons (adhB1, fba, hemH, rex, gapN, nirC, pncB, gap, adhE, and adhB2) involved in the transport and biosynthesis of niacin. Microarray results were further confirmed by β-galactosidase assays. Promoter-lacZ fusions assays and microarray studies showed that the transcriptional regulator, Rex acts as a transcriptional repressor of a number of genes/opero...
Source: GEO: Gene Expression Omnibus - June 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by array Streptococcus pneumoniae D39 Source Type: research

GSE94572 Transcriptome response of the Streptococcus pneumoniae D39 wild-type to NADH
In this study, we investigated the transcriptomic response of Streptococcus pneumoniae D39 to NADH. Transcriptome comparison of the D39 wild-type grown in chemically-defined medium (CDM) with 0 mg/ml NADH to 0.5 mg/ml NADH revealed elevated expression of various genes/operons (adhB1, fba, hemH, rex, gapN, nirC, pncB, gap, adhE, and adhB2) involved in the transport and biosynthesis of niacin. Microarray results were further confirmed by β-galactosidase assays. Promoter-lacZ fusions assays and microarray studies showed that the transcriptional regulator, Rex acts as a transcriptional repressor of a number of genes/opero...
Source: GEO: Gene Expression Omnibus - June 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by array Streptococcus pneumoniae D39 Source Type: research

GSE94573 Impact of NADH on gene expression of Streptococcus pneumoniae and role of Rex as a transcriptional repressor of the Rex regulon
Series Type : Expression profiling by arrayOrganism : Streptococcus pneumoniae D39This SuperSeries is composed of the SubSeries listed below. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - June 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by array Streptococcus pneumoniae D39 Source Type: research

GSE95289 Transcript expression of microdissected xenografted glioblastomas with and without treatment with Lck-I
Contributor : Nikos TapinosSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensMigration of human glioma stem cells (hGSCs) within the brain parenchyma makes glioblastoma one of the most aggressive and lethal tumors. Studies of the cellular and molecular mechanisms underlying hGSC migration are hindered by the limitations of existing migration models. Here we developed a dorsal root ganglion axon-oligodendrocyte-hGSC co-culture to study in real time the migration and interaction of hGSCs with their microenvironment. hGSCs interact with myelinated and non-myelinated axons through the forma...
Source: GEO: Gene Expression Omnibus - June 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Homo sapiens Source Type: research

GSE97125 Proteolytic processing of LRP2 on RPE cells regulates BMP activity to control eye size and refractive error
Contributors : Ross F Collery ; Brian A LinkSeries Type : Expression profiling by high throughput sequencingOrganism : Danio rerioWe compare dissected ocular tissues from wild-type and lrp2-/- mutant adult zebrafish in order to examine the genetic pathways underlying the enlarged eye phenotype observed in the absence of Lrp2. ABSTRACT: Mutations in LRP2, a transmembrane receptor, cause ocular enlargement and high-myopia. LRP2 is expressed by the RPE and eye ciliary epithelia, binding many extracellular ligands, including Bmp4 and Shh. Signaling mediated by LRP2 is very context-dependent, and how multiple pathways are coord...
Source: GEO: Gene Expression Omnibus - June 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Danio rerio Source Type: research

GSE97906 Effect of a progressive weaning on behavioural and physiologic indicators in foals (Equus caballus)
This article presents the effects of a progressive weaning on various physiological parameters (cortisol, C reactive protein, length of telomeres) and on the blood transcriptome, among the foals and the mares. Results indicate that a progressive weaning has beneficial short-term effects in foals, and that in the longer term the foals weaned abruptly have compensated this gap. In mothers, the beneficial effects of the progressive weaning are less important. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - June 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by array Equus caballus Source Type: research

GSE97907 Effect of a progressive weaning on behavioural and physiologic indicators in mares (Equus caballus)
This article presents the effects of a progressive weaning on various physiological parameters (cortisol, C reactive protein, length of telomeres) and on the blood transcriptome, among the foals and the mares. Results indicate that a progressive weaning has beneficial short-term effects in foals, and that in the longer term the foals weaned abruptly have compensated this gap. In mothers, the beneficial effects of the progressive weaning are less important. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - June 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by array Equus caballus Source Type: research

GSE97908 Effect of a progressive weaning on behavioural and physiologic indicators in foals and mares (Equus caballus)
Series Type : Expression profiling by arrayOrganism : Equus caballusThis SuperSeries is composed of the SubSeries listed below. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - June 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by array Equus caballus Source Type: research

GSE98053 VT257_DengueVaccination
Contributor : Stephen PopperSeries Type : Expression profiling by arrayOrganism : Homo sapiensHealthy flavivirus-naive volunteers (n=10) were vaccinated with the live attentuated dengue vaccine rDEN3∆30/31. An additional 4 subjects received placebo (PBS). Whole blood RNA (paxgene) for expression profiling was collected prior to vaccination (day 0), and on days 2,5,6,8,9,12,14,20,29,42, and 180. All samples from a given individual were extracted and prepared for hybridization at the same time; in some cases D0 samples were amplified and/or hybridized twice for quality control; results were averaged for subsequent analysis...
Source: GEO: Gene Expression Omnibus - June 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by array Homo sapiens Source Type: research

GSE98205 Promoter DNA sequence guides factors that position the +1 nucleosome and facilitate TBP binding [array]
Contributors : Slawomir Kubik ; Eoghan O'Duibhir ; Wim de Jonge ; Stefano Mattarocci ; Benjamin Albert ; Jean L Falcone ; Maria J Bruzzone ; Frank C Holstege ; David M ShoreSeries Type : Expression profiling by arrayOrganism : Saccharomyces cerevisiae ; Saccharomyces cerevisiae S288C ; Saccharomyces cerevisiae W303Here we present evidence that precise positioning of the +1 promoter nucleosome in yeast is critical for efficient TBP binding and pre-initiation complex assembly, and is determined, at least in part, by the action of two key factors, the essential chromatin remodeler RSC and one (or more) of a small set of ubiqu...
Source: GEO: Gene Expression Omnibus - June 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by array Saccharomyces cerevisiae Saccharomyces cerevisiae S288C Saccharomyces cerevisiae W303 Source Type: research

GSE98259 Promoter DNA sequence guides factors that position the +1 nucleosome and facilitate TBP binding [sequencing]
Contributors : Slawomir Kubik ; Eoghan O'Duibhir ; Wim de Jonge ; Stefano Mattarocci ; Benjamin Albert ; Jean L Falcone ; Maria J Bruzzone ; Frank C Holstege ; David M ShoreSeries Type : Genome binding/occupancy profiling by high throughput sequencingOrganism : Saccharomyces cerevisiaeHere we present evidence that precise positioning of the +1 promoter nucleosome in yeast is critical for efficient TBP binding and pre-initiation complex assembly, and is determined, at least in part, by the action of two key factors, the essential chromatin remodeler RSC and one (or more) of a small set of ubiquitous pioneer transcription fa...
Source: GEO: Gene Expression Omnibus - June 1, 2018 Category: Genetics & Stem Cells Tags: Genome binding/occupancy profiling by high throughput sequencing Saccharomyces cerevisiae Source Type: research

GSE98260 Promoter DNA sequence guides factors that position the +1 nucleosome and facilitate TBP binding
Series Type : Expression profiling by array ; Genome binding/occupancy profiling by high throughput sequencingOrganism : Saccharomyces cerevisiae ; Saccharomyces cerevisiae S288C ; Saccharomyces cerevisiae W303This SuperSeries is composed of the SubSeries listed below. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - June 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by array Genome binding/occupancy profiling by high throughput sequencing Saccharomyces cerevisiae Saccharomyces cerevisiae S288C Saccharomyces cerevisiae W303 Source Type: research

GSE98497 Comparing the Transcriptomes of Wild Type and Mtor-Gdf9-Cre mediated Oocyte-Conditional Knockout Mouse ovaries by RNA-Seq Analysis
Contributor : You-Qiang SuSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusThe goal of this study is to identify the differentially expressed genes in Gdf9-Cre mediated Mtor oocyte-specific knockout (CKO) ovaries by comparing the transcriptomes of Mtor Wild-Type (WT) and CKO Mouse ovaries via RNA-Seq Analysis. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - June 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Mus musculus Source Type: research

GSE98502 Gene expression profiling coupled with the Connectivity Map database-mining reveals potential therapeutic drugs for Hirschsprung disease
Contributors : Shangjie Xiao ; Xiaochun Zhu ; Hua Deng ; Weiping Zhou ; Wenyi Yang ; Like Yuan ; Jiangyu Zhang ; Liang Zhang ; Huimin XiaSeries Type : Expression profiling by arrayOrganism : Homo sapiensHirschsprung disease (HD) is a congenital intestinal anomaly, which derives from a failure to form enteric ganglia in the lower bowel. Surgery is a major therapeutic strategy and neural stem cells transplantation is believed as a promising approach. However, we still face many challenges. To better characterize the pathology of HD, we used Agilent microarrays to analyze the gene expression profiles of surgically resected bo...
Source: GEO: Gene Expression Omnibus - June 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by array Homo sapiens Source Type: research

GSE98850 Ribosomal Oxygenase 2 Constrains A Latent Anthelmintic Pathway In Intestinal Epithelial Cells
Contributors : Meenu R Pillai ; Belgacem Mihi ; Kenji Ishiwata ; Kiminori Nakamura ; Naoya Sakuragi ; David B Finkelstein ; Toshinori Nakayama ; Tokiyoshi Ayabe ; Peter J Ratcliffe ; Mathew L Coleman ; Mark BixSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusExpulsion of parasitic gastrointestinal nematodes requires diverse effector mechanisms coordinated by a Th2-type response. The evolutionarily conserved JmjC protein ribosomal oxygenase 2 (Riox2, formerly Mina) has been shown to repress IL4, a key Th2 cytokine, suggesting Riox2 may negatively regulate parasite expulsion. Here we rep...
Source: GEO: Gene Expression Omnibus - June 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Mus musculus Source Type: research

GSE98920 Dual effect of the Nrf2 inhibitor for inhibition of HCV and cell proliferation
Contributors : Sugiyama Kazuo ; Murakami Yuko ; Ebinuma Hirotoshi ; Nakamoto Nobuyuki ; Saito HidetsuguSeries Type : Expression profiling by arrayOrganism : Homo sapiensWe investigated whether brusatol, an Nrf2 inhibitor, has dual effects as anti-HCV and anti-hepatocellular carcinoma (HCC) and whether brusatol can enhance the similar dual effects of sorafenib. We showed that brusatol has dual effects as anti-HCV and anti-HCC and can enhance the similar in vitro effect by sorafenib and that there is potential of combination therapy of brusatol and sorafenib for HCV-related HCC. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - June 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by array Homo sapiens Source Type: research

GSE99366 RNA-seq of subcellular fractions from nESC and EpiLC
Contributors : Bo Wen ; Pin Lv ; Minzhe ZhuSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusWe analysed lncRNA subcellular location by performing RNAseq with fractionated nESC and epiblast-like cells (EpiLCs). (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - June 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Mus musculus Source Type: research

GSE99425 Vesicle treatment of HCT8 cells
Contributors : Svitlana Vdovikova ; Siv Gilfillan ; Antoni Hurtado ; Sun N WaiSeries Type : Genome binding/occupancy profiling by high throughput sequencingOrganism : Homo sapiensChIP-seq and FAIRE -Seq data of HCT8 cells after 5h treatment of vesicles from EC or VC (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - June 1, 2018 Category: Genetics & Stem Cells Tags: Genome binding/occupancy profiling by high throughput sequencing Homo sapiens Source Type: research

GSE99433 p63 regulates the switch from multipotency to unipotency during embryonic MG development
Contributors : Aline Wuidart ; C édric BlanpainSeries Type : Expression profiling by arrayOrganism : Mus musculusThe mammary gland (MG) is composed of basal cells (BCs) and luminal cells (LCs). While it is generally believed that MG arises from embryonic multipotent progenitors (EMPs), it remains unclear when lineage restriction occurs and what are the mechanisms responsible for the switch from multipotency to unipotency during MG morphogenesis. Here, we performed multicolor lineage tracing and assessed the fate of single embryonic progenitors during mouse MG development. We demonstrated the existence of a developme...
Source: GEO: Gene Expression Omnibus - June 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by array Mus musculus Source Type: research

GSE99492 Effect of Tmsb4x knockout on TGF- ß/MRTF signaling
Contributors : Tsuyoshi Morita ; Ken'ichiro HayashiSeries Type : Expression profiling by arrayOrganism : Mus musculusMyocardin-related transcription factors (MRTFs) are robust co-activator of Serum Reponse Factor, and regulate cell adhesion and motility by controlling the transcription level of cytoskeletal components. In tumor progression, MRTFs has been reported to contribute to metastatic potential. Previously, we reported thymosin- ß4 (Tß4, which is encoded by Tmsb4x gene) as an activator of MRTFs. Enhanced expression of Tß4 is frequently observed during tumor progression, and associated with poor pro...
Source: GEO: Gene Expression Omnibus - June 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by array Mus musculus Source Type: research

GSE99564 Gene expression in mouse ventromedial hypothalamus (VMH) after deletion of SIRT1 in SF1 neurons
Contributors : Giorgio Ramadori ; Roberto CoppariSeries Type : Expression profiling by arrayOrganism : Mus musculusVMH was dissected from 16-week-old mice with deletion of SIRT1 in SF1 neurons (Sf1-Cre; Sirt1loxP/loxP) and intact controls (Sirt1loxP/loxP) and fed on high calorie diet from 8 weeks of age. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - June 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by array Mus musculus Source Type: research

GSE99640 Functional study on the cooperation of ASXL1 and RUNX1 mutations for myeloid leukemia transformation
Contributors : Rabindranath Bera ; Lee Y Shih ; Ming C Chiu ; Ying J Huang ; Der C Liang ; Yun S LeeSeries Type : Expression profiling by arrayOrganism : Homo sapiensBACKGROUND: Our previous studies showed that RUNX1 and ASXL1 mutations were frequently co-existed in chronic myelomonocytic leukemia (CMML) and clonal evolution of RUNX1 and/or ASXL1 occurred most frequently in chronic myeloid leukemia (CML) with myeloid blastic crisis. The molecular pathogenesis of cooperation of RUNX1 and ASXL1 mutations has not been reported yet.METHODS: In this experimental pilot study, volunteers experiencing sneezing, runny nose, and con...
Source: GEO: Gene Expression Omnibus - June 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by array Homo sapiens Source Type: research

GSE99776 Gene expressions of H9s in different culture systems
Contributors : Yuguo Lei ; Chi ZhangSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensH9s were cultued in 2D, static 3D and dynamic 3D suspension and in the microspace cell culture system for 3 days. mRNAs were sequenced. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - June 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Homo sapiens Source Type: research

GSE99891 screen and quantify human muscle miRNAs
Contributor : Charles A StuartSeries Type : Expression profiling by RT-PCROrganism : Homo sapiensobservational: quantify muscle miRNAs and compare obese and lean men and womenusing Qiagen array miRNome performed by Qiagen in their laboratory (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - June 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by RT-PCR Homo sapiens Source Type: research

GSE99966 Global gene expression analysis of resistant and susceptible apple cultivars challenged with Penicillium expansum
Contributors : Masoud Ahmadi-Afzadi ; Mathilde Orsel ; Sandra Pelletier ; Maryline Bruneau ; Estelle Proux-W éra ; Hilde Nybom ; Jean-Pierre RenouSeries Type : Expression profiling by arrayOrganism : Malus domesticaBlue mold, caused by Penicillium expansum, is responsible for postharvest losses of apple fruit, and threatens human health through production of the potent mycotoxin patulin. No major gene(s) providing resistance have as yet been identified, but recent studies indicate a quantitative control of the disease. An AryANE chip covering 60K apple transcripts was used to identify possible candidate gene(s) that...
Source: GEO: Gene Expression Omnibus - June 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by array Malus domestica Source Type: research

GSE99995 Whole-transcriptome analysis of tumor tissues of lung adenocarcinoma reveals molecular changes under the influence of IFN- γ
Contributors : Yi Gao ; Lequn Li ; Xiangning FuSeries Type : Expression profiling by arrayOrganism : Homo sapiensIFN- γ is a critical cytokine which regulates both innate and adaptive immune. Ample evidences have elucidated the mechanisms of IFN-γ mediated antitumor effects, including driving T Helper Type 1 (Th1) polarization, activating cytotoxic lymphocyte (CTL) and natural killer T cells, upregulating major h istocompatibility complex class I expression (MHC Class I) in tumor cells, and inhibiting tumor cells proliferation, inducing tumor cells apoptosis. Despite the multiple effects in cancer immune elimin...
Source: GEO: Gene Expression Omnibus - June 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by array Homo sapiens Source Type: research

GSE100082 Smad4 pathways modulate induction of the chemokine Ccl20 and repress inflammation-induced carcinogenesis in mouse colon
Contributors : Anna L Means ; Tanner J Freeman ; Jing Zhu ; Connie J Weaver ; Chandrasekhar Padmanabhan ; Hanbing An ; Jinghuan Zi ; Bronson Wessinger ; Tasia Brown ; Natasha G Deane ; Rupesh Chaturvedi ; Robert J Coffey ; Keith T Wilson ; M K Washington ; Chanjuan Shi ; R D BeauchampSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusTo understand the extent of Smad-mediated gene regulation in the colon, we isolated colon epithelium from Smad4 ΔLrig1 and from Smad4+ control mice (either mice lacking a CreERT allele and treated with tamoxifen, or mice bearing a CreERT allele but tre...
Source: GEO: Gene Expression Omnibus - June 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Mus musculus Source Type: research

GSE100386 Blood and Nasal Epigenetics Correlate to Allergic Rhinitis Symptom Development in the Environmental Exposure Unit
Contributors : Michelle L North ; Meaghan J Jones ; Julia L MacIsaac ; Alexander M Morin ; Lisa M Steacy ; Alexander Gregor ; Michael S Kobor ; Anne K EllisSeries Type : Methylation profiling by genome tiling arrayOrganism : Homo sapiensEpigenetic alterations may represent new therapeutic targets and/or biomarkers of allergic rhinitis (AR). Our aim was to examine genome-wide epigenetic changes induced by controlled pollen exposure in the Environmental Exposure Unit (EEU). 38 AR-sufferers and 8 non-allergic controls were exposed to grass pollen for 3h on two consecutive days. We interrogated DNA methylation at baseline and ...
Source: GEO: Gene Expression Omnibus - June 1, 2018 Category: Genetics & Stem Cells Tags: Methylation profiling by genome tiling array Homo sapiens Source Type: research

GSE100596 Gene expression profile of WT and phoP mutant Mtb under heat-shock condition
Contributors : Ritesh R Sevalkar ; Dibyendu SarkarSeries Type : Expression profiling by arrayOrganism : Mycobacterium tuberculosisHeat-shock of 1 hr 30 min was given to WT and phoP mutant Mtb and gene expression profile was studied (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - June 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by array Mycobacterium tuberculosis Source Type: research

GSE100658 miR-204 blocks MYCN expression and is a novel a tumor suppressor in neuroblastoma tumorigenesis
In this study, we analyzed global miRNA and mRNA expression profiles of tissues at different stages of tumorigenesis from TH-MYCN transgenic mice, a model of MYCN-driven neuroblastoma. Based on a Bayesian learning network model in which we compared pre-tumor ganglia from TH-MYCN+/+ mice to age-matched wild-type controls, we devised a predicted miRNA-mRNA interaction network. Among the miRNA-mRNA interactions operating during human neuroblastoma tumorigenesis, we identified that miR-204 is a tumor suppressor miRNA that inhibits a subnetwork of oncogenes strongly associated with MYCN-amplified neuroblastoma and poor patient ...
Source: GEO: Gene Expression Omnibus - June 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by array Homo sapiens Source Type: research

GSE100850 Epigenetic alterations detected in the genome of very young breast cancer patients: identification of new biomarkers
Contributors : Sara S Oltra ; Gloria RibasSeries Type : Methylation profiling by genome tiling arrayOrganism : Homo sapiensBreast cancer in very young women (
Source: GEO: Gene Expression Omnibus - June 1, 2018 Category: Genetics & Stem Cells Tags: Methylation profiling by genome tiling array Homo sapiens Source Type: research

GSE101086 Improved mapping and characterization of R-loop forming loci in fission yeast.
Contributors : Stella R Hartono ; Am élie Malapert ; Pénélope Legros ; Pascal Bernard ; Frederic Chedin ; Vincent VanoosthuyseSeries Type : Expression profiling by high throughput sequencing ; Other ; Non-coding RNA profiling by high throughput sequencingOrganism : Schizosaccharomyces pombeR-loops both threaten genome integrity and act as physiological regulators of gene expression and chromatin patterning. To characterize R-loop forming loci in the fission yeast, we used the S9.6-based DRIPc-seq approach to obtain improved strand-specific maps of R-loop forming loci at near nucleotide resolution. We s...
Source: GEO: Gene Expression Omnibus - June 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Other Non-coding RNA profiling by high throughput sequencing Schizosaccharomyces pombe Source Type: research

GSE101395 De novo transcriptome of the mayfly Cloeon viridulum and transcriptional signatures of Prometabola
Contributors : Changfa Zhou ; Qin SiSeries Type : Expression profiling by high throughput sequencingOrganism : Cloeon viridulumwe used next-generation sequencing technology to characterize mRNA-seq of Cloeon viridulum (Ephemeroptera: Baetidae) among the young larva (YL), mature larva (ML), subimago (SI), imago (IM) stages, and mixture sampling (composite group, CG). (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - June 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Cloeon viridulum Source Type: research

GSE102300 RNAseq of FACS-sorted C.elegans neurons from wildtype and thoc-5(wy822) mutant animals.
Contributors : Celine I Maeder ; Qin LiSeries Type : Expression profiling by high throughput sequencingOrganism : Caenorhabditis elegansWe sorted approx. 10000 neurons per sample from day one adult worms. We collected two wildtype samples and three thoc-5(wy822) mutant samples. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - June 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Caenorhabditis elegans Source Type: research

GSE102358 Consequences of stressful states in early life on welfare-health indicators in chicken
Contributors : Marie P Moisan ; Aline Foury ; Laurence Guilloteau ; Christine Leterrier ; Anne CollinSeries Type : Expression profiling by arrayOrganism : Gallus gallusThe perinatal period is critical for farm animals which are very sensitive to external challenges at this stage; this is partly due to the immaturity of their digestive and immune systems and high demand on behavioural and physiological adaptation. In addition, recent studies have shown that perinatal stressors can be responsible for increased disease risk in adulthood. We therefore hypothesized that correct welfare-health (WH) management of the young animal...
Source: GEO: Gene Expression Omnibus - June 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by array Gallus gallus Source Type: research

GSE102892 miRNA Expression Profiles of Premalignant and Malignant Arsenic-Induced Skin Lesions
Contributors : Laila Al-Eryani ; Samantha Jenkins ; J C States ; Vanessa A StatesSeries Type : OtherOrganism : Homo sapiensTotal RNA was purified from keratinocytes isolated from FFPE arsenic-induced skin lesion samples collected from individuals exposed to high concentrations of arsenic exceeding 50 ppb in drinking water in Murshidibad district of West Bengal, India. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - June 1, 2018 Category: Genetics & Stem Cells Tags: Other Homo sapiens Source Type: research

GSE102899 The FlbA-regulated predicted transcription factor rpnR of Aspergillus niger is involved in protein secretion and stress resistance
Contributors : David Aerts ; Stijn G van den Bergh ; Robin A Ohm ; Han B W östenSeries Type : Expression profiling by high throughput sequencingOrganism : Aspergillus nigerProteins are secreted throughout the mycelium of Aspergillus niger except for the sporulating zone. Inactivation of flbA results in colonies that do not reproduce asexually and secrete proteins throughout the colony. Moreover, ΔflbA hyphae lyse and have thinner cell walls. This pleiotropic phenotype is associated with differential expression of 38 transcription factor genes, of which rpnR was inactivated in this study. Biomass formation and sp...
Source: GEO: Gene Expression Omnibus - June 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Aspergillus niger Source Type: research

GSE102957 Effect of GFI1 KD vs GFI1 KO on expression profiling and AML occurence.
Contributors : Jennifer Fraszczak ; Tarik M öröy ; Charles VadnaisSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusIn order to indentify the transcriptional differences between GFI1 KD and GFI1 KO mice that may account for differences in occurence of AML between these mice, we performed exresiion profiling by RNA-Seq on healthy young and old mice mice from both genotypes. In the case of GFI1 KD, the older mice had developped AML whereas KO mice of comparable ages did not. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - June 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Mus musculus Source Type: research

GSE103113 Transcriptomic analysis by Next Generation Sequencing of mouse bone marrow derived macrophages (BMDMs) infected by Wild-Type and gra18 mutant strains of T. gondii.
Conclusion: This approach identifies a specific set of genes that are regulated in a GRA18-dependent fashion in BMDM upon T. gondii infection. Particularly, GRA18 promotes the expression of chemokines Ccl17, Ccl22, and Ccl24. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - June 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Mus musculus Toxoplasma gondii Source Type: research

GSE104206 Assessing eRNAs associated with a cytokine-sensing mammary super-enhancer
Contributors : Chaochen Wang ; Tyler Kuhns ; Christian Reinbold ; Michaela Willi ; Lothar HennighausenSeries Type : Genome binding/occupancy profiling by high throughput sequencingOrganism : Mus musculusEnhancers are transcription factor platforms that also bind RNA polymerase II and generate enhancer RNAs (eRNA). Although eRNAs have been suggested as predictors of enhancer activities and possibly key components facilitating transcription, there is little genetic evidence to support this. We address the biology of eRNAs in vivo and investigate eRNA patterns, expression levels and possible functions within a mammary-specifi...
Source: GEO: Gene Expression Omnibus - June 1, 2018 Category: Genetics & Stem Cells Tags: Genome binding/occupancy profiling by high throughput sequencing Mus musculus Source Type: research

GSE104342 Macrophages mediate systemic tissue health after remote injury
Contributors : Kamila Naxerova ; Friedrich F Hoyer ; Matthias NahrendorfSeries Type : Expression profiling by arrayOrganism : Mus musculusFunctions of tissue-resident macrophages in the steady state and after direct injury to the vital organs they inhabit are currently emerging. Yet, whether macrophages react to injury systemically and remotely, for instance how lung, liver or renal macrophages respond to myocardial infarction and stroke, remains obscure. Here we report that after myocardial infarction, stroke and peritonitis, macrophage populations expand in most distant organs through local cell proliferation and recruit...
Source: GEO: Gene Expression Omnibus - June 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by array Mus musculus Source Type: research

GSE104354 Salmonella activation of STAT3 signaling by SarA effector promotes intracellular replication and production of IL-10
Contributors : Sarah L Jaslow ; Kyle D Gibbs ; W F Fricke ; Liuyang Wang ; Kelly J Pittman ; Mark K Mammel ; Joshua T Thaden ; Vance G Fowler Jr ; Gianna E Hammer ; Johanna R Elfenbein ; Dennis C KoSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensSalmonella enterica is an important foodborne pathogen that utilizes secreted effector proteins to manipulate host pathways to facilitate survival and dissemination. Different S. enterica serovars cause disease syndromes ranging from self-limited gastroenteritis to typhoid fever and vary in their repertoire of effectors. We leveraged this natu...
Source: GEO: Gene Expression Omnibus - June 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Homo sapiens Source Type: research

GSE104521 Long-term expansion and differentiation of adult murine epidermal stem cells in three-dimensional organoid cultures
Contributors : Kim Boonekamp ; Kai Kretzschmar ; Dominique J Wiener ; Priyanca Asra ; Sepideh Derakhshan ; Onur Basak ; Hans CleversSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusMammalian epidermal stem cells maintain homeostasis of skin epidermis and contribute to its regeneration throughout adult life. While two-dimensional mouse epidermal stem cell cultures have been established decades ago, a long-term, feeder cell- and serum-free culture system recapitulating murine epidermal architecture has not been available. Here we describe an epidermal organoid culture system that allows ...
Source: GEO: Gene Expression Omnibus - June 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Mus musculus Source Type: research

GSE104790 Hemogenic endothelial fate mapping reveals dual developmental origin of mast cells.
Contributors : Rebecca Gentek ; Marc Baj énoffSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusHematopoiesis occurs in distinct waves. ‘Definitive’ hematopoietic stem cells (HSC) with the potential for all blood lineages emerge in the aorta-gonado-mesonephros (AGM), while ‘primitive’ progenitors, whose potential is thought to be limited to erythrocytes, megakaryocytes and macrophages (MΦ), arise earlier in the yolk sac (YS ). Here, we questioned whether other YS lineages exist that have not been identified, partially owing to limitations of current li...
Source: GEO: Gene Expression Omnibus - June 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Mus musculus Source Type: research

GSE105457 Extracellular vesicle-mediated intercellular signaling between breast carcinoma cells and endothelial cells
Contributors : Abdel Elkahloun ; Sukhbir KaurSeries Type : Expression profiling by arrayOrganism : Homo sapiensHuvec cells treated or not by exosomes from MDA-231 cell line. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - June 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by array Homo sapiens Source Type: research

GSE106225 Multi-axial self-organisation properties of mouse embryonic stem cells into gastruloids [bulk]
Contributors : L Beccari ; N Boris ; M GirginSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusGastruloids are small aggregates of murine Embryonic Stem (ES) cells stimulated to undergo gastrulation-like symmetry breaking events in vitro (van den Brink, S. C. et al. 2014, Simunovic, M.& Brivanlou, A. H 2017). We analyzed the transcriptomic profiles of gastruloids at different time-points after aggregation (AA), showing that they are capable of organizing a post-occipital pattern of neural, mesodermal and endodermal derivatives that mimics that of the embryo in terms of gene expressi...
Source: GEO: Gene Expression Omnibus - June 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Mus musculus Source Type: research

GSE106226 Multi-axial self-organisation properties of mouse embryonic stem cells into gastruloids [individual]
Contributors : L Beccari ; N Moris ; M GirginSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusGastruloids, small aggregates of murine Embryonic Stem (ES) cells stimulated to undergo gastrulation-like symmetry breaking events in vitro (van den Brink, S. C. et al. 2014, Simunovic, M.& Brivanlou, A. H 2017).   Analysis of the transcriptional profiles from pools of gastruloids collected at different time-points after aggregation (AA) revealed that gastruloids are capable of organizing an axially integrated post-occipital pattern of neural, mesodermal and endodermal deriv...
Source: GEO: Gene Expression Omnibus - June 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Mus musculus Source Type: research

GSE106227 Multi-axial self-organisation properties of mouse embryonic stem cells into gastruloids
Series Type : Expression profiling by high throughput sequencingOrganism : Mus musculusThis SuperSeries is composed of the SubSeries listed below. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - June 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Mus musculus Source Type: research

GSE106308 Effect of larval nutrition on maternal mRNA contribution to the Drosophila egg
Contributors : Amanda A Crofton ; Susan E LottSeries Type : Expression profiling by high throughput sequencingOrganism : Drosophila melanogasterTranscriptomes of stage 2 Drosophila embryos, from mothers with different food conditions during the larval stage (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - June 1, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Drosophila melanogaster Source Type: research