Homo sapiens
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ABSTRACT:
PROVIDER: PRJNA132517 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:To obtain global miRNA expression signatures of gDLBCL and its precursor lesions, total RNA isolated from 7-8 cases each of Helicobacter-associated reactive gastritis, low grade MALT lymphoma and high grade gDLBCL was hybridized to Agilent miRNA microarrays representing 795 human mature miRNAs. Unsupervised hierarchical clustering analysis revealed a clear segregation of the gDLBCL cases from the low grade MALT lymphomas and the gastritis samples; the segregation of the latter two disease entities was only incomplete (Figure 1A), reflecting the relative biological similarity of gastritis and low grade lymphomas. Statistical analysis of the dataset revealed only 26 differentially expressed miRNAs between these two groups (p<0.05), whereas 57 miRNAs exhibited significant differences in expression between low and high grade lymphomas. 7 human gastritis, 8 lowgrade MALT lymphoma and 7 high grade MALT lymphoma samples were used in the microarray analysis
2010-10-02 | E-GEOD-24485 | biostudies-arrayexpress
Project description:The miRNA expression signature of human MALT lymphoma
| PRJNA130605 | ENA
Project description:To obtain global miRNA expression signatures of gDLBCL and its precursor lesions, total RNA isolated from 7-8 cases each of Helicobacter-associated reactive gastritis, low grade MALT lymphoma and high grade gDLBCL was hybridized to Agilent miRNA microarrays representing 795 human mature miRNAs. Unsupervised hierarchical clustering analysis revealed a clear segregation of the gDLBCL cases from the low grade MALT lymphomas and the gastritis samples; the segregation of the latter two disease entities was only incomplete (Figure 1A), reflecting the relative biological similarity of gastritis and low grade lymphomas. Statistical analysis of the dataset revealed only 26 differentially expressed miRNAs between these two groups (p<0.05), whereas 57 miRNAs exhibited significant differences in expression between low and high grade lymphomas.
2010-10-02 | GSE24485 | GEO
Project description:Extranodal marginal zone B-cell lymphoma (MZBL) of the mucosa-associated lymphoid tissue (MALT) is an indolent lymphoma mostly affecting the gastrointestinal tract. In the stomach, MZBL of MALT initially has small cell morphology (SC-MZBL) and arises in the background of Helicobacter pylori induced gastritis. Clonal malignant progression to large cell morphology (LC-MZBL) is observed. During this progression an intermediate stage consisting of both the small cell and large cell morphology is present, called "composite lymphoma". To gain insight into the DNA methylation changes associated with progression of gastric MZBL of MALT, we performed genome-wide DNA methylation profiling using the Illumina Infinium MethylationEPIC BeadChip array for 30 microdissected samples of gastric MZBL of MALT.
2021-05-21 | GSE150417 | GEO
Project description:The molecular pathogenesis of orbital lymphoproliferative disorders, such as immunoglobulin G4-related ophthalmic disease (IgG4-ROD) and orbital mucosa-associated lymphoid tissue (MALT) lymphoma, remains essentially unknown. Differentiation between the two disorders, which is important since work-up and treatment can vary greatly, is often challenging due to the lack of specific biomarkers. Although miRNAs play an important role in the regulation of carcinogenesis and inflammation, the relationship between miRNA and orbital lymphoproliferative diseases remains unknown. A comprehensive analysis of 2,565 miRNAs was performed in biopsied specimens and serum of 17 cases with IgG4-ROD and 21 cases with orbital MALT lymphoma. We identified specific miRNA signatures, their miRNA target pathways, and network analysis associated with IgG4-ROD and orbital MALT lymphoma. Machine-learning analysis identified miR-202-3p and miR-7112-3p as the best discriminators of IgG4-ROD and orbital MALT lymphoma, respectively. In the tissue pathway, Longevity regulating pathway in IgG4-ROD and MAPK signaling pathway in orbital MALT lymphoma were most enriched by downregulated miRNAs. This is the first evidence of the miRNA profile in biopsied specimens and serum of patients with IgG4-ROD and orbital MALT lymphoma. These data will be useful for developing diagnostic and therapeutic interventions, as well as elucidating of these disorders.
2021-08-01 | GSE155177 | GEO
Project description:We have sequenced miRNA libraries from human embryonic, neural and foetal mesenchymal stem cells. We report that the majority of miRNA genes encode mature isomers that vary in size by one or more bases at the 3’ and/or 5’ end of the miRNA. Northern blotting for individual miRNAs showed that the proportions of isomiRs expressed by a single miRNA gene often differ between cell and tissue types. IsomiRs were readily co-immunoprecipitated with Argonaute proteins in vivo and were active in luciferase assays, indicating that they are functional. Bioinformatics analysis predicts substantial differences in targeting between miRNAs with minor 5’ differences and in support of this we report that a 5’ isomiR-9-1 gained the ability to inhibit the expression of DNMT3B and NCAM2 but lost the ability to inhibit CDH1 in vitro. This result was confirmed by the use of isomiR-specific sponges. Our analysis of the miRGator database indicates that a small percentage of human miRNA genes express isomiRs as the dominant transcript in certain cell types and analysis of miRBase shows that 5’ isomiRs have replaced canonical miRNAs many times during evolution. This strongly indicates that isomiRs are of functional importance and have contributed to the evolution of miRNA genes
2014-08-06 | GSE58734 | GEO
Project description:21 Tissue samples of gastric MALT lymphoma were compared by cDNA microarray studies with chronic gastritis tissues from the same patient. From each patient, multiple mucosal biopsies of the stomach were taken both from i) the macroscopically infiltrated area and ii) distant from the lymphoma. For conventional histological examination, biopsies taken from the same areas were formalin fixed, embedded in paraffin and reviewed by a central pathologist. All lymphoma samples were tested by RT-PCR for t(11;18). None of them was t(11;18) positive.
2007-07-24 | E-MEXP-1168 | biostudies-arrayexpress
Project description:Gene expression profiling of pulmonary MALT lymphoma
| PRJNA109899 | ENA
Project description:Comparison of gene expression profiling analysis of bone marrow isolated CD34+ cells from patients with MALT lymphoma vs. healthy individuals revealed a large number of differentially expressed genes that included NF-kB target genes, genes involved in inflamatory signalling and immunoglobulin genes, suggesting an early lymphoid B-cell priming. Chromosomal translocations involving MALT1 gene are hallmarks of mucosa-associated lymphoid tissue (MALT) lymphoma. However, targeting these translocations to mouse B-cells has failed to reproduce human disease. Here, we induced MALT1 expression in mouse Sca1+Lin- hematopoietic stem/progenitor cells (HS/PCs), leading to the development of tumors recapitulating the clinical, histopathological and molecular features of human MALT lymphomas. Ablation of the p53 gene induced transformation of MALT lymphoma to diffuse large-cell lymphoma of activated B-cell type (ABC-DLBCL). Human CD34+ cells isolated from MALT lymphoma patients displayed an abnormal transcriptional program that was shared by MALT lymphoma cells, transgenic mouse Sca1+Lin- cells and Sca1-MALT1-induced lymphomas. Our study shows that MALT lymphoma can be modeled in mice by targeting MALT1 oncogene to HS/PCs.
2012-07-10 | GSE34015 | GEO
Project description:We have sequenced miRNA libraries from human embryonic, neural and foetal mesenchymal stem cells. We report that the majority of miRNA genes encode mature isomers that vary in size by one or more bases at the 3’ and/or 5’ end of the miRNA. Northern blotting for individual miRNAs showed that the proportions of isomiRs expressed by a single miRNA gene often differ between cell and tissue types. IsomiRs were readily co-immunoprecipitated with Argonaute proteins in vivo and were active in luciferase assays, indicating that they are functional. Bioinformatics analysis predicts substantial differences in targeting between miRNAs with minor 5’ differences and in support of this we report that a 5’ isomiR-9-1 gained the ability to inhibit the expression of DNMT3B and NCAM2 but lost the ability to inhibit CDH1 in vitro. This result was confirmed by the use of isomiR-specific sponges. Our analysis of the miRGator database indicates that a small percentage of human miRNA genes express isomiRs as the dominant transcript in certain cell types and analysis of miRBase shows that 5’ isomiRs have replaced canonical miRNAs many times during evolution. This strongly indicates that isomiRs are of functional importance and have contributed to the evolution of miRNA genes Sequence library of miRNAs from a single sample of human foetal mesenchymal stem cells. Results tested and confirmed by northern blotting. Please note that only raw data files are available for the embryonic and neual samples and thus, directly submitted to SRA (SRX547311, SRX548700, respectively under SRP042115/PRJNA247767)
2014-08-06 | E-GEOD-58734 | biostudies-arrayexpress