Similar Datasets
Project description:Purpose: Next-generation sequencing (NGS) has revolutionized systems-based analysis of cellular pathways. The goals of this study are to compare NGS-derived B. coagulans transcriptome profiling (RNA-seq) of both control and treatment (treated with metal oxide nanoparticle)
2025-04-11 | GSE200007 | GEO
Project description:16S rRNA Reverse complement PCR (RC-PCR) NGS data. Raw sequence reads
| PRJNA875245 | ENA
Project description:Most proteogenomic approaches for mapping single amino acid polymorphisms (SAPs) require construction of a sample-specific database containing protein variants predicted from the next-generation sequencing (NGS) data. We present a new strategy for direct SAP detection without relying on NGS data. Among the 348 putative SAP peptides identified in an industrial yeast strain, 85.6% of SAP sites were validated by genomic sequencing.
2018-04-18 | PXD003101 | Pride
Project description:The goals of this study are to compare NGS-derived transcriptome profiling (RNA-seq) of Seminavis robusta in presence and absence of associated bacterial spent medium (Maribacter sp. and Roseovarius sp.) in order to highlight the effect of bacterial exudates on diatom gene expression and metabolic processes.
2019-07-15 | GSE131727 | GEO
Project description:Evaluting HLA loss of heterozygosity, a key immune escape mechanism, using NGS and immunopeptidomics.
2021-11-04 | PXD022323 | Pride
Project description:Six bacterial genomes, Geobacter metallireducens GS-15, Chromohalobacter salexigens, Vibrio breoganii 1C-10, Bacillus cereus ATCC 10987, Campylobacter jejuni subsp. jejuni 81-176 and Campylobacter jejuni NCTC 11168, all of which had previously been sequenced using other platforms were re-sequenced using single-molecule, real-time (SMRT) sequencing specifically to analyze their methylomes. In every case a number of new N6-methyladenine (m6A) and N4-methylcytosine (m4C) methylation patterns were discovered and the DNA methyltransferases (MTases) responsible for those methylation patterns were assigned. In 15 cases it was possible to match MTase genes with MTase recognition sequences without further sub-cloning. Two Type I restriction systems required sub-cloning to differentiate their recognition sequences, while four MTases genes that were not expressed in the native organism were sub-cloned to test for viability and recognition sequences. No attempt was made to detect 5-methylcytosine (m5C) recognition motifs from the SMRT sequencing data because this modification produces weaker signals using current methods. However, all predicted m6A and m4C MTases were detected unambiguously. This study shows that the addition of SMRT sequencing to traditional sequencing approaches gives a wealth of useful functional information about a genome showing not only which MTase genes are active, but also revealing their recognition sequences. Examination of the methylomes of six different strains of bacteria using kinetic data from single-molecule, real-time (SMRT) sequencing on the PacBio RS.
2012-10-04 | E-GEOD-40133 | biostudies-arrayexpress
Project description:Through a NGS screening, we identified germline STAG1 variants in an Acute Lymphoblastic Leukemia (ALL) and MDS patients
2024-03-30 | E-MTAB-11760 | biostudies-arrayexpress