GSE111076 DNA:cytoplasm ratio defines an upper limit to cell size
Series Type : Expression profiling by high throughput sequencing ; Expression profiling by arrayOrganism : Candida albicans ; Saccharomyces cerevisiae ; Saccharomyces cerevisiae W303This SuperSeries is composed of the SubSeries listed below. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - February 7, 2019 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Expression profiling by array Candida albicans Saccharomyces cerevisiae Saccharomyces cerevisiae W303 Source Type: research

GSE112379 Ribosome Quality Control complex is a proteotoxic stress sensor responsible for transcriptional downregulation
Contributors : Fernando Aprile Garcia ; Parul Tomar ; Barbara Hummel ; Ritwick SawarkarSeries Type : Other ; Genome binding/occupancy profiling by high throughput sequencingOrganism : Homo sapiensProteotoxic stress activates HSF-dependent heat-shock response to transcriptionally upregulate chaperones. Stress also leads to downregulation of house-keeping genes but the cellular pathway linking stress with transcriptional downregulation is not known. Here we report that enhanced recruitment of negative elongation factors (NELF) to chromatin causes gene downregulation in human cells. Stress-induced increase in cytosolic protei...
Source: GEO: Gene Expression Omnibus - February 7, 2019 Category: Genetics & Stem Cells Tags: Other Genome binding/occupancy profiling by high throughput sequencing Homo sapiens Source Type: research

GSE124299 Establishing Cerebral Organoids as Models of Human-Specific Brain Evolution
Contributor : Alex PollenSeries Type : Expression profiling by high throughput sequencing ; Third-party reanalysisOrganism : Homo sapiens ; Macaca mulatta ; Pan troglodytesDirect comparisons of human and non-human primate brain tissue have the potential to reveal molecular pathways underlying remarkable specializations of the human brain. However, chimpanzee tissue is largely inaccessible during neocortical neurogenesis when differences in brain size first appear. To identify human-specific features of cortical development, we leveraged recent innovations that permit generating pluripotent stem cell-derived cerebral organo...
Source: GEO: Gene Expression Omnibus - February 7, 2019 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Third-party reanalysis Homo sapiens Macaca mulatta Pan troglodytes Source Type: research

GSE124546 Co-targeting RNA Polymerases IV and V promotes efficient de novo DNA methylation in Arabidopsis
Contributors : Javier Gallego-Bartolom é ; Wanlu LiuSeries Type : Expression profiling by high throughput sequencing ; Genome binding/occupancy profiling by high throughput sequencing ; Methylation profiling by high throughput sequencing ; Non-coding RNA profiling by high throughput sequencingOrganism :The RNA-directed DNA methylation (RdDM) pathway in plants controls gene expression via cytosine DNA methylation. The ability to manipulate RdDM would shed light on the mechanisms and applications of DNA methylation to control gene expression. Here, we identified diverse RdDM proteins that are capable of targeting meth...
Source: GEO: Gene Expression Omnibus - February 7, 2019 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Genome binding/occupancy profiling by high throughput sequencing Methylation profiling by high throughput sequencing Non-coding RNA profiling by high throughput sequencing Source Type: research

GSE124744 Co-targeting RNA Polymerases IV and V promotes efficient de novo DNA methylation in Arabidopsis [BS-PCR-seq]
Contributors : Javier Gallego-Bartolom é ; Wanlu LiuSeries Type : Methylation profiling by high throughput sequencingOrganism : Arabidopsis thalianaThe RNA-directed DNA methylation (RdDM) pathway in plants controls gene expression via cytosine DNA methylation. The ability to manipulate RdDM would shed light on the mechanisms and applications of DNA methylation to control gene expression. Here, we identified diverse RdDM proteins that are capable of targeting methylation and silencing in Arabidopsis when tethered to an artificial zinc finger (ZF-RdDM). We studied their order of action within the RdDM pathway by testi...
Source: GEO: Gene Expression Omnibus - February 7, 2019 Category: Genetics & Stem Cells Tags: Methylation profiling by high throughput sequencing Arabidopsis thaliana Source Type: research

GSE124746 Co-targeting RNA Polymerases IV and V promotes efficient de novo DNA methylation in Arabidopsis [WGBS]
Contributors : Javier Gallego-Bartolom é ; Wanlu LiuSeries Type : Methylation profiling by high throughput sequencingOrganism : Arabidopsis thalianaThe RNA-directed DNA methylation (RdDM) pathway in plants controls gene expression via cytosine DNA methylation. The ability to manipulate RdDM would shed light on the mechanisms and applications of DNA methylation to control gene expression. Here, we identified diverse RdDM proteins that are capable of targeting methylation and silencing in Arabidopsis when tethered to an artificial zinc finger (ZF-RdDM). We studied their order of action within the RdDM pathway by testi...
Source: GEO: Gene Expression Omnibus - February 7, 2019 Category: Genetics & Stem Cells Tags: Methylation profiling by high throughput sequencing Arabidopsis thaliana Source Type: research

GSE124747 Co-targeting RNA Polymerases IV and V promotes efficient de novo DNA methylation in Arabidopsis [RNA-seq]
Contributors : Javier Gallego-Bartolom é ; Wanlu LiuSeries Type : Expression profiling by high throughput sequencingOrganism : Arabidopsis thalianaThe RNA-directed DNA methylation (RdDM) pathway in plants controls gene expression via cytosine DNA methylation. The ability to manipulate RdDM would shed light on the mechanisms and applications of DNA methylation to control gene expression. Here, we identified diverse RdDM proteins that are capable of targeting methylation and silencing in Arabidopsis when tethered to an artificial zinc finger (ZF-RdDM). We studied their order of action within the RdDM pathway by testin...
Source: GEO: Gene Expression Omnibus - February 7, 2019 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Arabidopsis thaliana Source Type: research

GSE124749 Co-targeting RNA Polymerases IV and V promotes efficient de novo DNA methylation in Arabidopsis [small RNA-seq]
Contributors : Javier Gallego-Bartolom é ; Wanlu LiuSeries Type : Non-coding RNA profiling by high throughput sequencingOrganism : Arabidopsis thalianaThe RNA-directed DNA methylation (RdDM) pathway in plants controls gene expression via cytosine DNA methylation. The ability to manipulate RdDM would shed light on the mechanisms and applications of DNA methylation to control gene expression. Here, we identified diverse RdDM proteins that are capable of targeting methylation and silencing in Arabidopsis when tethered to an artificial zinc finger (ZF-RdDM). We studied their order of action within the RdDM pathway by te...
Source: GEO: Gene Expression Omnibus - February 7, 2019 Category: Genetics & Stem Cells Tags: Non-coding RNA profiling by high throughput sequencing Arabidopsis thaliana Source Type: research

GSE124750 Co-targeting RNA Polymerases IV and V promotes efficient de novo DNA methylation in Arabidopsis [ChIP-seq]
Contributors : Javier Gallego-Bartolom é ; Wanlu LiuSeries Type : Genome binding/occupancy profiling by high throughput sequencingOrganism : Arabidopsis thalianaThe RNA-directed DNA methylation (RdDM) pathway in plants controls gene expression via cytosine DNA methylation. The ability to manipulate RdDM would shed light on the mechanisms and applications of DNA methylation to control gene expression. Here, we identified diverse RdDM proteins that are capable of targeting methylation and silencing in Arabidopsis when tethered to an artificial zinc finger (ZF-RdDM). We studied their order of action within the RdDM pat...
Source: GEO: Gene Expression Omnibus - February 7, 2019 Category: Genetics & Stem Cells Tags: Genome binding/occupancy profiling by high throughput sequencing Arabidopsis thaliana Source Type: research

GSE126136 A focused deep mutational scan on the Env transmembrane and proximal cytosolic regions reveals an absence of sequence features for MA association
Contributor : Erik ProckoSeries Type : OtherOrganism : Human immunodeficiency virus 1The HIV-1 surface glycoprotein Env binds target receptors to mediate fusion of the viral and host cell membranes during infection. Env is incorporated with very low density into virions, and in some cell types, regions within the long cytosolic C-terminal tail may mediate direct or indirect associations with Gag during virus assembly and budding. Here, the mutational landscape is determined across the transmembrane and proximal cytosolic domains of Env (001428 isolate from clade C) interacting with the MA domain of Gag at cellular membrane...
Source: GEO: Gene Expression Omnibus - February 7, 2019 Category: Genetics & Stem Cells Tags: Other Human immunodeficiency virus 1 Source Type: research

GSE126137 Global transcriptome profiling was performed for keratinocytes transfected with either miR-146a mimics (Pre-146a) or negative control (Pre-NC).
Contributors : Du Leilei ; Li MinSeries Type : Expression profiling by arrayOrganism : Homo sapiensTo find out potiential target gene of miR-146a,we have employed whole genome microarray expression profiling as a discovery platform to identify genes with the potential to target miR-146a. Human keratinocytes was transfected with either miR-146a mimics (Pre-146a) or negative control (Pre-NC) for 48h, then RNA was extracted for whole genome microarray expression profiling. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - February 7, 2019 Category: Genetics & Stem Cells Tags: Expression profiling by array Homo sapiens Source Type: research

GSE126138 ChIP-seq analysis of 143B cells upon mtDNA depletion and metabolic intervention [ChIP-Seq 2]
Contributors : Oswaldo A Lozoya ; Inmaculada Martinez-Reyes ; Tianyuan Wang ; Dagoberto Grenet ; Taylor Wolfgang ; Pierre Bushel ; Jianying Li ; Gonzalo Riadi ; Douglas G da Silva ; Richard P Woychik ; Janine H SantosSeries Type : Genome binding/occupancy profiling by high throughput sequencingOrganism : Homo sapiensThe goal of the study was to understand whether mitochondrial-driven epigenetic changes regulate gene expression. Mitochondrial metabolism has been implicated in epigenetics but the extent to which this impacts gene expression is unclear. Here we show that loss of mitochondrial DNA (mtDNA) results in locus-spec...
Source: GEO: Gene Expression Omnibus - February 7, 2019 Category: Genetics & Stem Cells Tags: Genome binding/occupancy profiling by high throughput sequencing Homo sapiens Source Type: research

GSE126148 Negative regulation of lymphoid specification by the transcription factor Tal1
We examined the consequences of E2A- or Lyl1-deficiency on development of LMPPs and on their gene expression program in comparison with wild-type LMPPsWe used microarray data to examine the differences in gene expression between control, E2A-/- and Lyl1-/- CD138+ LSK cells. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - February 7, 2019 Category: Genetics & Stem Cells Tags: Expression profiling by array Mus musculus Source Type: research

GSE126153 Transcriptional changes associated with overexpression of TBX3 isoforms (TBX3iso1 and TBX3iso2) in the DCIS-like 21NT cell line (RNA-Seq)
Conclusions: This is the only existing study which has conducted assessment of transcriptional changes associated with TBX3 isoforms (TBX3iso1 and TBX3iso2). Our published study has identified the transcriptional regulator TBX3 as an enabler of EMT in non-high grade, pre-invasive lesions of the breast, inducing SLUG and promoting the transition from in situ (DCIS) to invasive breast cancer. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - February 7, 2019 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Homo sapiens Source Type: research

GSE126154 Transcriptional changes associated with overexpression of TBX3 isoforms (TBX3iso1 and TBX3iso2) in the DCIS-like 21NT cell line (ChIP)
Conclusions: This is the only existing study which has conducted assessment of transcriptional changes associated with TBX3 isoforms (TBX3iso1 and TBX3iso2). Our published study has identified the transcriptional regulator TBX3 as an enabler of EMT in non-high grade, pre-invasive lesions of the breast, inducing SLUG and promoting the transition from in situ (DCIS) to invasive breast cancer. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - February 7, 2019 Category: Genetics & Stem Cells Tags: Genome binding/occupancy profiling by array Homo sapiens Source Type: research

GSE126156 Transcriptional changes associated with overexpression of TBX3 isoforms (TBX3iso1 and TBX3iso2) in the DCIS-like 21NT cell line
Series Type : Genome binding/occupancy profiling by array ; Expression 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 - February 7, 2019 Category: Genetics & Stem Cells Tags: Genome binding/occupancy profiling by array Expression profiling by high throughput sequencing Homo sapiens Source Type: research

GSE126157 Effects of cordycepin on murine macrophage-like cells in the presence and absence of an inflammatory stimulus
Contributors : Graeme J Thorn ; Raj D Gandhi ; Victoria Chapman ; Cornelia H de MoorSeries Type : Expression profiling by arrayOrganism : Mus musculusTo perform high-throughput, transcriptome-wide analysis on RAW 264.7 cells treated with cordycepin with and without bacterial lipopolysaccharide (LPS) to investigate cordycepin's anti-inflammatory properties and determine whether particular classes of RNAs were sensitive to cordycepin. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - February 7, 2019 Category: Genetics & Stem Cells Tags: Expression profiling by array Mus musculus Source Type: research

GSE126160 CD34mono GEP
This study explored the impact of the detection of CD34+mono in donor peripheral blood on clinical outcomes after hematopoietic cell transplantation (HCT), and demonstrated the gene expression profiles (GEP) of CD34+mono compared with CD34+ cells and conventional monocytes. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - February 7, 2019 Category: Genetics & Stem Cells Tags: Expression profiling by array Homo sapiens Source Type: research

GSE126164 Genome-wide analysis of gene expression in proliferative dentate gyrus (DG) nuclei of adult wild-type and KMT2D-deficient mice
Contributors : Giovanni A Carosso ; Gabrielle H CannonSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusWe conducted genome wide transcription profiling by RNA-seq in proliferating neuronal progenitors after purifying EdU+ nuclei from micro-dissected DG of adult wild-type and KMT2D-deficient mice (Kmt2d +/Bgeo) (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - February 7, 2019 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Mus musculus Source Type: research

GSE126165 Genome-wide analysis of gene expression in wild-type and KMT2D-deficient HT22 cells
Contributors : Giovanni A Carosso ; Leandros Boukas ; Kasper D HansenSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusWe conducted genome wide transcription profiling by RNA-seq in a mouse hippocampal cell line (HT22), comparing cells with CRISPR-Cas9 mediated deletion of the KMT2D enzymatic SET methyltransferase domain to the parental cell line (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - February 7, 2019 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Mus musculus Source Type: research

GSE126166 Chromatin profiling in HT22 hippocampal cells
Contributors : Giovanni A Carosso ; Li Zhang ; Leandros Boukas ; Kasper D HansenSeries Type : Genome binding/occupancy profiling by high throughput sequencingOrganism : Mus musculusWe conducted genome-wide analysis of KMT2D binding sites in a hippocampal cell line to define KMT2D-dependent functions in neuronal context (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - February 7, 2019 Category: Genetics & Stem Cells Tags: Genome binding/occupancy profiling by high throughput sequencing Mus musculus Source Type: research

GSE126167 KMT2D loss disrupts cell cycle and hypoxic responses in neurodevelopmental models of Kabuki syndrome
Series Type : Expression profiling by high throughput sequencing ; Genome binding/occupancy 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 - February 7, 2019 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Genome binding/occupancy profiling by high throughput sequencing Mus musculus Source Type: research

GSE126168 Real-time quantitative PCR analysis of U87 ΔEGFR intracranial mouse models treated with bevacizumab
This study examined gene expression in glioma cells to investigate the mechanisms of bevacizumab-induced invasion.We made a human glioma U87 ΔEGFR cell xenograft model by stereotactically injecting glioma cells into the brain of animals. We administered bevacizumab intraperitoneally three times per week. At 18 days after tumor implantation, the brains were removed for histopathology and mRNA was extracted. In vivo, bevacizumab treatment increased glioma cell invasion. qRT-PCR array analysis were perfomed (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - February 7, 2019 Category: Genetics & Stem Cells Tags: Expression profiling by RT-PCR Homo sapiens Source Type: research

GSE126170 Long non-coding RNA RP11-820 promotes extracellular matrix production via regulating miR-3178/MYOD1 in human trabecular meshwork cells
Contributors : Wencui Shen ; Bingqing HuangSeries Type : Non-coding RNA profiling by arrayOrganism : Homo sapiensTo further explore t of the role lncRNAs in glaucoma patients, we have employed lncRNAs microarray expression profiling as a discovery platform to identify abnormal genes under oxidative stress in HTMCs. Our results revealed that lncRNA-RP11 was significantly up-regulated under oxidative stress in HTMCs. Further studies found that lncRNA-RP11-820 directly binds miR-3178, through which regulates the expression of MYOD1. Importantly, MYOD1 can transcriptionally activate ECM genes. Furthermore, MYOD1 binds STAT3 to...
Source: GEO: Gene Expression Omnibus - February 7, 2019 Category: Genetics & Stem Cells Tags: Non-coding RNA profiling by array Homo sapiens Source Type: research

GSE126173 Bcor loss perturbs myeloid differentiation and promotes leukaemogenesis [20wChiP-seq]
Contributors : Madison J Kelly ; Stephin VervoortSeries Type : Genome binding/occupancy profiling by high throughput sequencingOrganism : Mus musculusInvestigation of the epigenetic profile induced by Bcor loss (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - February 7, 2019 Category: Genetics & Stem Cells Tags: Genome binding/occupancy profiling by high throughput sequencing Mus musculus Source Type: research

GSE126174 Bcor loss perturbs myeloid differentiation and promotes leukaemogenesis [20wRNA-seq]
Contributors : Madison J Kelly ; Stephin VervoortSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusInvestigation of the gene expression changes induced by Bcor loss in myeloid progenitors (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - February 7, 2019 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Mus musculus Source Type: research

GSE126175 Bcor loss perturbs myeloid differentiation and promotes leukaemogenesis [ATAC-seq]
Contributors : Madison J Kelly ; Stephin VervoortSeries Type : Genome binding/occupancy profiling by high throughput sequencingOrganism : Mus musculusInvestigation of the chromatin accessibility in myeloid progenitor cells (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - February 7, 2019 Category: Genetics & Stem Cells Tags: Genome binding/occupancy profiling by high throughput sequencing Mus musculus Source Type: research

GSE126177 Bcor loss perturbs myeloid differentiation and promotes leukaemogenesis [BcorKrasChIP-seq]
Contributors : Madison J Kelly ; Stephin VervoortSeries Type : Genome binding/occupancy profiling by high throughput sequencingOrganism : Mus musculusInvestigation of the transcriptional changes in Bcor ΔE9-10KrasG12D myeloid progenitors (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - February 7, 2019 Category: Genetics & Stem Cells Tags: Genome binding/occupancy profiling by high throughput sequencing Mus musculus Source Type: research

GSE126179 Bcor loss perturbs myeloid differentiation and promotes leukaemogenesis [BcorKrasRNA-seq]
Contributors : Madison J Kelly ; Stephin VervoortSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusInvestigation of the transcriptional profile of Bcor ΔE9-10KrasG12D myeloid progenitors (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - February 7, 2019 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Mus musculus Source Type: research

GSE126180 Bcor loss perturbs myeloid differentiation and promotes leukaemogenesis [TargetedCRISPRscreen]
Contributors : Madison J Kelly ; Stephin VervoortSeries Type : OtherOrganism : Mus musculusInvestigating Bcor target genes in Bcor ΔE9-10KrasG12D leukaemia with a custom CRISPR dropout screen (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - February 7, 2019 Category: Genetics & Stem Cells Tags: Other Mus musculus Source Type: research

GSE126183 Bcor loss perturbs myeloid differentiation and promotes leukaemogenesis [TransplantRNA-SEQ]
Contributors : Madison J Kelly ; Stephin VervoortSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusInvestigation of the transcriptional consequences of Bcor loss in bone marrow transplant (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - February 7, 2019 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Mus musculus Source Type: research

GSE126185 RNA-seq 2-cell Suv391 injected
Contributor : Adam BurtonSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusDetermine whole genome RNA sequence information from 2-cell stage mouse embryos (20 embryos per sample). To use Ovation RNA-Seq System V2 kit for cDNA preparation of both mRNA and non-polyadenylated transcripts. Paired-end sequencing. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - February 7, 2019 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Mus musculus Source Type: research

GSE126186 mini-INTACT reveals social isolation-induced epigenetic changes in Drosophila dopaminergic neurons
Contributor : Pavan AgrawalSeries Type : Expression profiling by high throughput sequencing ; Genome binding/occupancy profiling by high throughput sequencingOrganism : Drosophila melanogasterWe introduce a more sensitive method for purifying specific cell-types from small numbers of fly heads for epigenomic analysis: a method we call ‘mini-INTACT’. We modified the INTACT method in Drosophila [Henry G. L. et al., Nucleic Acids Research, 2012, 1–14] to enable purification of genetically tagged rare cell types from Drosophila brain requiring ~50-100 fold less material. We used male fruit flies as a model...
Source: GEO: Gene Expression Omnibus - February 7, 2019 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Genome binding/occupancy profiling by high throughput sequencing Drosophila melanogaster Source Type: research

GSE126188 Mismatch-repair signature mutations activate gene enhancers across human colorectal cancer epigenomes
Contributors : Alina R Saiakhova ; Stevephen Hung ; Peter C ScacheriSeries Type : Genome binding/occupancy profiling by high throughput sequencingOrganism : Homo sapiensWe show that mismatch-repair (MMR) signature mutations can activate colorectal cancer (CRC)-specific enhancers, through analysis of enhancer DNA associated with the active enhancer histone mark H3K27ac. We demonstrate that MMR mutations activate enhancers using a xenograft metastasis model, where mutations are induced naturally via CRISPR/Cas9 inactivation of MLH1 prior to tumor cell injection. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - February 7, 2019 Category: Genetics & Stem Cells Tags: Genome binding/occupancy profiling by high throughput sequencing Homo sapiens Source Type: research

GSE126189 Single-cell transcriptional analysis of disseminated single cells acquired from epithelial ovarian cancer ascites [DSC]
Contributors : Tongtong Kan ; Mengsu YangSeries Type : Expression profiling by RT-PCROrganism : Homo sapiensWe used single-cell RT-PCR to analyze the EMT program of disseminated single cells acquired from epithelial ovarian cancer (EOC) ascites. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - February 7, 2019 Category: Genetics & Stem Cells Tags: Expression profiling by RT-PCR Homo sapiens Source Type: research

GSE126190 Single-cell transcriptional analysis of disseminated tumor cell clusters acquired from epithelial ovarian cancer ascites [DTCC]
Contributors : Tongtong Kan ; Mengsu YangSeries Type : Expression profiling by RT-PCROrganism : Homo sapiensWe used single-cell RT-PCR to analyze the cellular components and the EMT program of disseminated tumor cell clusters acquired from epithelial ovarian cancer (EOC) ascites. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - February 7, 2019 Category: Genetics & Stem Cells Tags: Expression profiling by RT-PCR Homo sapiens Source Type: research

GSE126192 Single-cell transcriptional analysis of disseminated single cells and disseminated tumor cell clusters acquired from epithelial ovarian cancer ascites
Series Type : Expression profiling by RT-PCROrganism : Homo sapiensThis SuperSeries is composed of the SubSeries listed below. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - February 7, 2019 Category: Genetics & Stem Cells Tags: Expression profiling by RT-PCR Homo sapiens Source Type: research

GSE126110 CD11c+ cells acquire Plasmodium from hepatocytes to prime CD8 T cell immunity to liver-stage malaria
Contributors : Samarchith P Kurup ; Rahul Vijay ; Scott M Anthony ; Ramakrishna Sompallae ; John T HartySeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusMalaria,  caused by Plasmodium parasites is responsible for the illness of millions of individuals each year. Plasmodium sporozoites inoculated by mosquitoes migrate to the liver and infect hepatocytes prior to release of merozoites that initiate symptomatic blood-stage malaria. Parasites are thought t o be restricted to hepatocytes throughout this obligate liver-stage of replication and differentiation. In con...
Source: GEO: Gene Expression Omnibus - February 5, 2019 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Mus musculus Source Type: research

GSE77606 Transcriptomic analysis of human tumor cell lines
Contributor : Masatoshi WakuiSeries Type : Expression profiling by arrayOrganism : Homo sapiensTo investigate tumor heterogeneity based on information theory applied to transcriptomics, we analyzed gene expression profiles of human tumor cell lines cultured under normoxia or hypoxia. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - February 5, 2019 Category: Genetics & Stem Cells Tags: Expression profiling by array Homo sapiens Source Type: research

GSE77616 Whole-transcriptome gene expression profiling in TRPC1-silenced human primary aortic smooth muscle cells.
Contributors : Cigdem Selli ; Yasemin Erac ; Metiner TosunSeries Type : Expression profiling by arrayOrganism : Homo sapiensEffects of TRPC1 silencing on whole-transcriptome gene expression were determined in human primary aortic vascular smooth muscle cells using whole-transcriptome gene expression profiling. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - February 5, 2019 Category: Genetics & Stem Cells Tags: Expression profiling by array Homo sapiens Source Type: research

GSE85610 Gene expression profiles in response to proanthocyanidins in pancreatic cancer cells
Contributor : Yi ZhangSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensProanthocyanidins (PAs) that are naturally occurring compounds have shown the potential chemopreventive ef ficacy against various forms of cancers in different tumor models. To elucidate the responsible molecular mechanisms involved in antitumor therapeutic effects of PAs, the transcriptome changes of pancreatic cancer cells exposure to PAs at 3, 12 and 24h were investigated in this study. Through two b iological replicate sequencing, 966, 3543 and 4944 differentially expressed genes in response to PAs exposure wer...
Source: GEO: Gene Expression Omnibus - February 5, 2019 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Homo sapiens Source Type: research

GSE101546 SETDB1 controls T helper cell lineage integrity by repressing endogenous retroviruses
In conclusion, H3K9me3 deposition by SETDB1 ensures T helper cell lineage integrity by repressing a repertoire of ERVs that have been exapted into cis-regulatory modules to shape and control the Th1 gene network. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - February 5, 2019 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Genome binding/occupancy profiling by high throughput sequencing Mus musculus Source Type: research

GSE103682 Short-term low calorie diet remodels skeletal muscle lipid profile and metabolic gene expression in obese adults
CONCLUSIONS Short-term diet intervention and weight loss in obese adults alters metabolic gene expression and reduces specific phosphatidylcholine and triglyceride species in skeletal muscle, concomitant with improvements in clinical outcomes and enhanced insulin sensitivity. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - February 5, 2019 Category: Genetics & Stem Cells Tags: Expression profiling by array Homo sapiens Source Type: research

GSE105080 Genome-wide regulatory  adaptation shapes population-level genomic landscapes in Heliconius [ChIP-seq]
Contributors : Robert D Reed ; James J LewisSeries Type : Genome binding/occupancy profiling by high throughput sequencingOrganism : Heliconius erato lativitta ; Heliconius erato petiverana ; Heliconius himeraWe test the hypothesis that intraspecific genomic divergence is linked to regulatory variation between  Heliconius butterfly populations. We show that population-level divergence in chromatin accessibility and regulatory activity during wing development is abundant, and that differences in regulatory activity between populations are strongly associated with developmental stage. Genomic regions with high Fst&...
Source: GEO: Gene Expression Omnibus - February 5, 2019 Category: Genetics & Stem Cells Tags: Genome binding/occupancy profiling by high throughput sequencing Heliconius erato lativitta Heliconius erato petiverana Heliconius himera Source Type: research

GSE107275 Regulation of gene expression upon inhibition of ROCK and MLCK in mammary epithelial cells
Contributors : Sirio Dupont ; Silvio BicciatoSeries Type : Expression profiling by arrayOrganism : Homo sapiensTo understand how mechanical cues regulate cell metabolism, we compared early changes in gene expression in Ras-transformed MCF10AtK1 mammary epithelial cells grown in high cytoskeletal tension conditions (plastics) vs. cells grown in low cytoskeletal tension conditions (inhibition of the non-muscle myosin II regulatory kinases ROCK and MLCK with standard small-molecule inhibitors Y27632 and ML7, respectively).Keywords: Expression profiling by array (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - February 5, 2019 Category: Genetics & Stem Cells Tags: Expression profiling by array Homo sapiens Source Type: research

GSE109889 Genome-wide regulatory adaptation shapes population-level genomic landscapes in Heliconius [ATAC-seq]
Contributors : Robert D Reed ; James J LewisSeries Type : Genome binding/occupancy profiling by high throughput sequencingOrganism : Heliconius erato lativitta ; Heliconius erato petiverana ; Heliconius himeraWe test the hypothesis that intraspecific genomic divergence is linked to regulatory variation between Heliconius butterfly populations. We show that population-level divergence in chromatin accessibility and regulatory activity during wing development is abundant, and that differences in regulatory activity between populations are strongly associated with developmental stage. Genomic regions with high Fst are highly ...
Source: GEO: Gene Expression Omnibus - February 5, 2019 Category: Genetics & Stem Cells Tags: Genome binding/occupancy profiling by high throughput sequencing Heliconius erato lativitta Heliconius erato petiverana Heliconius himera Source Type: research

GSE110151 Effect of LXR623, liver X receptor agonist, on colon cancer cells
Contributors : Chiaki Ishida ; Markus SiegelinSeries Type : Expression profiling by arrayOrganism : Homo sapiensWe performed micro array analysis in order to evaluate the effect of LXR623 on gene expression in colon cancer cells (HCT116). (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - February 5, 2019 Category: Genetics & Stem Cells Tags: Expression profiling by array Homo sapiens Source Type: research

GSE110152 Effect of LXR623, liver X receptor agonist, on glioma cells
Contributors : Chiaki Ishida ; Markus SiegelinSeries Type : Expression profiling by arrayOrganism : Homo sapiensWe performed micro array analysis in order to evaluate the effect of LXR623 on gene expression in glioma cancer cells (U87). (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - February 5, 2019 Category: Genetics & Stem Cells Tags: Expression profiling by array Homo sapiens Source Type: research

GSE110179 Next Generation Sequencing Facilitated Differential Transcriptome Study of melanoma cells transduced with Notch 1 Intracellular Domain (NICD)
Contributor : Ranjan PereraSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensTranscriptome profiling (mRNA-seq) of melanoma cells overexpressing NICD (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - February 5, 2019 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Homo sapiens Source Type: research

GSE110219 JAK1/2 inhibitor therapy-associated lymphomas in myelofibrosis arising from a pre-existing B-cell clone
In this study, we elucidated differential gene expression between transformed and untransformed murine Stat1 -/- B cells by RNA sequencing. In addition, clinical samples from 2 lymphoma patients were analyzed. Key results are that 1) JAK1/2 inhibitor treatment in myelofibrosis is associated with an increased risk for aggressive B-cell lymphomas and 2) patients at risk can be identified by screening for pre-existing B-cell clones in peripheral blood or bone marrow. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - February 5, 2019 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Homo sapiens Mus musculus Source Type: research