Ontology highlight
ABSTRACT:
PROVIDER: PRJNA744341 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:Illumina Miseq 250bp paired sequencing fastq file
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Project description:This is the whole genome and epigenome nasopharyngeal cancer sequencing from clinical nasopharyngeal biopsy. The methylation information is derived from nanopore sequencing in its native form. The 5mC information per position is extracted and presented here as a bedgraph file.
2025-01-15 | GSE272926 | GEO
Project description:Transposon insertion site sequencing (TIS) is a powerful method for associating genotype to phenotype. However, all TIS methods described to date use short nucleotide sequence reads which cannot uniquely determine the locations of transposon insertions within repeating genomic sequences where the repeat units are longer than the sequence read length. To overcome this limitation, we have developed a TIS method using Oxford Nanopore sequencing technology that generates and uses long nucleotide sequence reads; we have called this method LoRTIS (Long Read Transposon Insertion-site Sequencing). This experiment data contains sequence files generated using Nanopore and Illumina platforms. Biotin1308.fastq.gz and Biotin2508.fastq.gz are fastq files generated from nanopore technology. Rep1-Tn.fastq.gz and Rep1-Tn.fastq.gz are fastq files generated using Illumina platform. In this study, we have compared the efficiency of two methods in identification of transposon insertion sites.
2022-05-30 | E-MTAB-11351 | biostudies-arrayexpress
Project description:Illumina Miseq 250bp paired sequencing fastq file for sinus microbiome
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Project description:20 random DNA barcodes were designed in silico and transfected into PC3 cells. Barcodes were sequenced using Illumina-Miseq technology to find the sequence and their respective copy numbers. Current file contains the raw data of these DNA barcodes in fastq format
2016-03-31 | GSE67441 | GEO
Project description:Genome wide DNA methylation profiling of normal lung tissue samples. The Illumina Infinium 450k Human DNA methylation Beadchip was used to obtain DNA methylation profiles across approximately 450,000 CpGs in nor mal lung tissue samples. Samples included 244 normal lung tissue samples from lung cancer patients. Environment and Genetics in Lung Cancer Etiology EAGLE; Population-based case-control study Bisulphite converted DNA from 244 fresh-frozen primary human lung samples were hybridised to the Illumina Infinium 450k Human Methylation Beadchip v1.2. This file has 60 samples.
2014-03-03 | E-GEOD-52401 | biostudies-arrayexpress
Project description:Nitrate-reducing iron(II)-oxidizing bacteria are widespread in the environment contribute to nitrate removal and influence the fate of the greenhouse gases nitrous oxide and carbon dioxide. The autotrophic growth of nitrate-reducing iron(II)-oxidizing bacteria is rarely investigated and poorly understood. The most prominent model system for this type of studies is enrichment culture KS, which originates from a freshwater sediment in Bremen, Germany. To gain insights in the metabolism of nitrate reduction coupled to iron(II) oxidation under in the absence of organic carbon and oxygen limited conditions, we performed metagenomic, metatranscriptomic and metaproteomic analyses of culture KS. Raw sequencing data of 16S rRNA amplicon sequencing, shotgun metagenomics (short reads: Illumina; long reads: Oxford Nanopore Technologies), metagenome assembly, raw sequencing data of shotgun metatranscriptomes (2 conditions, triplicates) can be found at SRA in https://www.ncbi.nlm.nih.gov/bioproject/PRJNA682552. This dataset contains proteomics data for 2 conditions (heterotrophic and autotrophic growth conditions) in triplicates.
2021-05-17 | PXD023186 | Pride
Project description:Single cell RNA sequencing data across seven samples of the Trypanosoma cruzi in vitro lifecycle. The samples have the following lifecycle stage compositions: Sample 1 (fastq file prefix = cycle_epimast) - Mix of exponential growth growth epimastigotes and amastigotes derived 120 hours post infection of Vero cells with trypomastigotes. Sample 2 (fastq file prefix = cycle_amast) - Mix of amastigotes derived 6 and 24 hours post infection of Vero cells with trypomastigotes. Sample 3 (fastq file prefix = cycle_metacyc1) - Mix of stationary growth phase epimastigotes and metacyclic trypomastigotes (first of two biological replicates). Sample 4 (fastq file prefix = cycle_metacyc2) - Mix of stationary growth phase epimastigotes and metacyclic trypomastigotes (second of two biological replicates). Sample 5 (fastq file prefix = cycle_trypomast)- Trypomastigotes harvested from culture 7 days post infection of Vero cells with trypomastigotes. Sample 6 (fastq file prefix = LifeCycleMix1) - A mix of amastigotes derived 6, 24 and 120 hours hours post infection of vera cells with trypomastigotes, exponential and stationary growth phase epimastigotes, metacyclic trypomastigotes and trypomastigotes harvested from culture 7 days post infection of Vero cells with trypomastigotes (first of two biological replicates). Sample 7 (fastq file prefix = LifeCycleMix2) - A mix of amastigotes derived 6, 24 and 120 hours hours post infection of Vero cells with trypomastigotes, exponential and stationary growth phase epimastigotes, metacyclic trypomastigotes and trypomastigotes harvested from culture 7 days post infection of Vero cells with trypomastigotes (first of two biological replicates). Sample 8 (fastq file prefix = A2, B2, C2 and D2) - Amastigotes derived 48 hours post infection of Vero cells
2025-08-27 | E-MTAB-14406 | biostudies-arrayexpress