GSE218605 Identification of different miRNAs in Alzheimer's disease and vascular cognitive impairment and dementia
Contributors : Li Sun ; Weijie Zhai ; Meng ZhaoSeries Type : Non-coding RNA profiling by high throughput sequencingOrganism : Homo sapiensThere are many subtypes of dementia without any minimally invasive, low-cost and efficient diagnostic biomarkers. MicroRNA (miRNA) are easily gained and accessible from patients, which may be a promising biomarker for dementia diagnosis and differential diagnosis. We make a completely expression analysis of serum miRNA from 24 participants including post-stroke cognitive impairment (PSCI) group (n=6), post-stroke non-cognitive impairment (PSCI) group, Alzheimer's Disease (AD) group (n...
Source: GEO: Gene Expression Omnibus - April 17, 2024 Category: Genetics & Stem Cells Tags: Non-coding RNA profiling by high throughput sequencing Homo sapiens Source Type: research
GSE225423 Bulk and single cell RNA-seq of MCF7 and MCF7 TDP2-KO cells treated with/without estrogen
Contributors : Hisashi Tanaka ; Sungyong You ; Nicholas Manguso ; Minhyung KimSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensTo investigate the function of tyrosyl-DNA phosphodiesterase 2 (TDP2) in estrogen receptor (ER) positive breast cancer, we perfomed bulk and single-cell RNA-seq on MCF7 and MCF7 TDP2-KO cells treated with/without estrogen . (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - April 17, 2024 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Homo sapiens Source Type: research
GSE225532 RECQL4 is not critical for firing of human DNA replication origins
Contributors : Laura Padayachy ; Sotirios G Ntallis ; Thanos D HalazonetisSeries Type : OtherOrganism : Homo sapiensRECQL4, a member of the RecQ helicase family, plays a role in maintaining genomic stability, but its precise function remains unclear. The N-terminus of RECQL4 has similarity to Sld2, a protein required for the firing of DNA replication origins in budding yeast. Consistent with this sequence similarity, Xenopus RECQL4 has been implicated in initiating DNA replication in oocyte extracts. To determine whether human RECQL4 is required for firing of DNA replication origins, we generated cells in which both RECQL...
Source: GEO: Gene Expression Omnibus - April 17, 2024 Category: Genetics & Stem Cells Tags: Other Homo sapiens Source Type: research
GSE227671 Jagged2 targeting in lung cancer activates anti-tumor immunity via Notch-induced functional reprogramming of tumor-associated macrophages
Contributors : Darwin Chang ; Xiaoqing Yu ; Timothy ShawSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusSignaling through Notch receptors intrinsically regulates tumor cell development and growth. However, whether Notch ligands on cancer cells impact anti-tumor immunity remains unclear. We demonstrate that deletion of Notch ligand Jagged2, but not Jagged1, in lung cancer cells attenuates tumor growth and activates anti-tumor T cell responses. Jagged2 deletion in cancer cells incites intra-tumor accumulation of macrophages with elevated capacity to uptake, process, and present antig...
Source: GEO: Gene Expression Omnibus - April 17, 2024 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Mus musculus Source Type: research
GSE228105 Jagged2 targeting in lung cancer activates anti-tumor immunity via Notch-induced functional reprogramming of tumor-associated macrophages [scRNA-seq]
Contributors : Darwin Chang ; Xiaoqing Yu ; Timothy ShawSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusSignaling through Notch receptors intrinsically regulates tumor cell development and growth. However, whether Notch ligands on cancer cells impact anti-tumor immunity remains unclear. We demonstrate that deletion of Notch ligand Jagged2, but not Jagged1, in lung cancer cells attenuates tumor growth and activates anti-tumor T cell responses. Jagged2 deletion in cancer cells incites intra-tumor accumulation of macrophages with elevated capacity to uptake, process, and present antig...
Source: GEO: Gene Expression Omnibus - April 17, 2024 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Mus musculus Source Type: research
GSE228598 Gene expression profile at single cell level of Peritoneal Cells in Patients with Gastric Cancer
Contributor : Yanghee WooSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensWe used single cell RNA sequencing (scRNA-seq) to analyze the diversity of Peritoneal Cells in Patients with Gastric Cancer. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - April 17, 2024 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Homo sapiens Source Type: research
GSE229818 Meyoid-specific deficiency of Glutamine Synthetase Aggravates LPS/D-GalN-induced liver injury via the activation of monocyte-derived macrophages
In conclusion, this research validates the protective effect of Glul against ALI. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - April 17, 2024 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Mus musculus Source Type: research
GSE229874 Genome-wide profiling of DNA repair identifies higher-order coordination in single cells
Contributors : Kim L de Luca ; Pim M Rullens ; Ga ëlle Legube ; Jop KindSeries Type : Other ; Genome binding/occupancy profiling by high throughput sequencingOrganism : Homo sapiensAccurate repair of DNA damage is critical for maintenance of genomic integrity and cellular survival. Because damage occurs non-uniformly across the genome, single-cell resolution is required for proper interrogation, but sensitive detection has remained challenging. Here, we present genome-wide binding profiles of DNA double-strand break repair proteins in single cells, allowing for the study of heterogeneity in genomic damage locations and ...
Source: GEO: Gene Expression Omnibus - April 17, 2024 Category: Genetics & Stem Cells Tags: Other Genome binding/occupancy profiling by high throughput sequencing Homo sapiens Source Type: research
GSE230213 Identifying suitable experimental designs to determining differentially expressed genes and benchmark doses from transcriptomic dose-response studies in zebrafish embryos
Contributors : Hyojin Lee ; John Stead ; Andrew Williams ; Ella Atlas ; Jan Mennigen ; Jason O'Brien ; Carole YaukSeries Type : Expression profiling by high throughput sequencingOrganism : Danio rerioTo identify suitable experimental designsfor toxicology experiments (i.e., sample size, pool size, number of biological replicates, and number of doses), we exposed zebrafish embryos to 0.1% dimethyl sulfoxide for 4-120 hours post fertilization. We then created 96 samples to examine the impact of pool size comprised of 1, 5, 10, and 20 zebrafish embryos each (n = 24). From these, total RNA extraction was extracted and t...
Source: GEO: Gene Expression Omnibus - April 17, 2024 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Danio rerio Source Type: research
GSE230496 Epigenomic profiling by ATAC-seq and ChIL-seq in B cells and plasma cells
Contributors : Y Saito ; A Harada ; Y Ohkawa ; Y BabaSeries Type : Genome binding/occupancy profiling by high throughput sequencingOrganism : Mus musculusWe performed ATAC-seq and H3.3 ChIL-seq to underdatand dynamic change of chromatin accessibility and H3.3 deposition into genome during B cell differentiation. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - April 17, 2024 Category: Genetics & Stem Cells Tags: Genome binding/occupancy profiling by high throughput sequencing Mus musculus Source Type: research
GSE230710 GATAD2B containing NuRD complex drives R-loop dependent chromatin boundary formation at double strand breaks
Contributors : Zhichao Liu ; Kamal Ajit ; Monika GullerovaSeries Type : Genome binding/occupancy profiling by high throughput sequencingOrganism : Homo sapiensTo understand how components of NuRD could be recruited to DNA double-stranded break sites, we generate site-specific DNA double strand breaks through an inducible endonuclease AsiSI-ER system by adding 4-OHT, we applied antibodies against GATAD2B and HDAC1, both of which are components of NuRD complex, to pero ChIP in either DMSO or 4OHT treatment condition. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - April 17, 2024 Category: Genetics & Stem Cells Tags: Genome binding/occupancy profiling by high throughput sequencing Homo sapiens Source Type: research
GSE231528 SARS-COV-2 putative mi-RNAs may target host immune system and cellular mechanisms to mediate pathogenesis-an in silico and in vivo study I
Contributors : Mohit K Rai ; Sukanya Tripathy ; Anamika K Anuja ; Durga P Misra ; Rupali Awale ; Latika Gupta ; Pankti Mehta ; Gaurav Pande ; Supriya Sharma ; Zia Hashim ; Alok Nath ; Mohan Gurjar ; Afzal Azeem ; Naveen R_ ; Sundaram Gopalakrishnan ; Thomas N Koshy ; Neha Singh ; Vishwesh Agarwal ; Ajmal Khan ; Vikas AgarwalSeries Type : Expression profiling by RT-PCROrganism : Homo sapiensThe exact role of epigenetics in the pathogenesis of severe acute respiratory syndrome corona virus 2 (SARS-CoV-2) is unclear. Herein we have hypothesized that viral micro RNAs (miRNAs) may modulate host cellular and immu...
Source: GEO: Gene Expression Omnibus - April 17, 2024 Category: Genetics & Stem Cells Tags: Expression profiling by RT-PCR Homo sapiens Source Type: research
GSE231529 SARS-COV-2 putative mi-RNAs may target host immune system and cellular mechanisms to mediate pathogenesis-an in silico and in vivo study II
Contributors : Mohit K Rai ; Sukanya Tripathy ; Anamika K Anuja ; Durga P Misra ; Rupali Awale ; Latika Gupta ; Pankti Mehta ; Gaurav Pande ; Supriya Sharma ; Zia Hashim ; Alok Nath ; Mohan Gurjar ; Afzal Azeem ; Naveen R_ ; Sundaram Gopalakrishnan ; Thomas N Koshy ; Neha Singh ; Vishwesh Agarwal ; Ajmal Khan ; Vikas AgarwalSeries Type : Expression profiling by RT-PCROrganism : Homo sapiensThe exact role of epigenetics in the pathogenesis of severe acute respiratory syndrome corona virus 2 (SARS-CoV-2) is unclear. Herein we have hypothesized that viral micro RNAs (miRNAs) may modulate host cellular and immu...
Source: GEO: Gene Expression Omnibus - April 17, 2024 Category: Genetics & Stem Cells Tags: Expression profiling by RT-PCR Homo sapiens Source Type: research
GSE231530 SARS-COV-2 putative mi-RNAs may target host immune system and cellular mechanisms to mediate pathogenesis-an in silico and in vivo study
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 - April 17, 2024 Category: Genetics & Stem Cells Tags: Expression profiling by RT-PCR Homo sapiens Source Type: research
GSE233157 Expression Signature of Human Endogenous Retroviruses in Chronic Lymphocytic Leukemia
Contributors : Alessandro La Ferlita ; Giovanni Nigita ; Liudmyla Tsyba ; Alexey Palamarchuk ; Salvatore Alaimo ; Alfredo Pulvirenti ; Veronica Balatti ; Laura Rassenti ; Philip N Tsichlis ; Thomas Kipps ; Yuri Pekarsky ; Carlo M CroceSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensChronic lymphocytic leukemia (CLL) is one of the most diagnosed forms of leukemia worldwide and it is usually classified into two forms: indolent and aggressive. These two forms are characterized by distinct molecular features that drive different responses to treatment and clinical outcomes. In t...
Source: GEO: Gene Expression Omnibus - April 17, 2024 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Homo sapiens Source Type: research
