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next generation sequencing data  (Databank Inc)

 
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    Databank Inc next generation sequencing data
    Next Generation Sequencing Data, supplied by Databank Inc, used in various techniques. Bioz Stars score: 86/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/next+generation+sequencing+data/16s+bacterial+data+gene+rrna+sequencing+%E2%80%A2/pmc13049674-464-2-18
    Average 86 stars, based on 1 article reviews
    next generation sequencing data - by Bioz Stars, 2026-11
    86/100 stars

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    Related Articles

    Sequencing:

    Article Title: Stress-induced glucocorticoids enhance acute inflammation by promoting the differentiation of Th17 cells.
    Article Snippet: .. • Bacterial 16S rRNA gene sequencing data were deposited in the DNA DataBank of Japan (DDBJ) under accession number DDBJ: PRJDB14307. ..

    Article Title: Metabolite-mediated interactions and direct contact between Fusobacterium varium and Faecalibacterium prausnitzii.
    Article Snippet: Funding This work was supported by the Ministry of Education, Culture, Sports, Science and Technology of Japan (MEXT)/Japan Society for the Promotion of Science KAKENHI (grant numbers 22K15004 and 22KK0257 to K. H.); the Japan Agency for Medical Research and Development (AMED, grant numbers 24ae0121035s0104, 24ae0121039s0104, and 24ae0121042h0004 to J. K.); programs for Bridging the gap between R&D and the iDeal society (society 5.0) and Generating Economic and social value (BRiDGE) to J. K.; G-7 Scholarship Foundation to K. H.; and the Hakubaku Co., Ltd. (Yamanashi, Japan). .. Data availability DNA sequencing data have been deposited in the DNA Databank of Japan (DDBJ) under the BioProject numbers PRJDB15701 (16S amplicon sequencing), PRJDB18854 (shotgun sequencing), and PRJDB18861 (RNA-seq). ..

    DNA Sequencing:

    Article Title: Metabolite-mediated interactions and direct contact between Fusobacterium varium and Faecalibacterium prausnitzii.
    Article Snippet: Funding This work was supported by the Ministry of Education, Culture, Sports, Science and Technology of Japan (MEXT)/Japan Society for the Promotion of Science KAKENHI (grant numbers 22K15004 and 22KK0257 to K. H.); the Japan Agency for Medical Research and Development (AMED, grant numbers 24ae0121035s0104, 24ae0121039s0104, and 24ae0121042h0004 to J. K.); programs for Bridging the gap between R&D and the iDeal society (society 5.0) and Generating Economic and social value (BRiDGE) to J. K.; G-7 Scholarship Foundation to K. H.; and the Hakubaku Co., Ltd. (Yamanashi, Japan). .. Data availability DNA sequencing data have been deposited in the DNA Databank of Japan (DDBJ) under the BioProject numbers PRJDB15701 (16S amplicon sequencing), PRJDB18854 (shotgun sequencing), and PRJDB18861 (RNA-seq). ..

    Amplification:

    Article Title: Metabolite-mediated interactions and direct contact between Fusobacterium varium and Faecalibacterium prausnitzii.
    Article Snippet: Funding This work was supported by the Ministry of Education, Culture, Sports, Science and Technology of Japan (MEXT)/Japan Society for the Promotion of Science KAKENHI (grant numbers 22K15004 and 22KK0257 to K. H.); the Japan Agency for Medical Research and Development (AMED, grant numbers 24ae0121035s0104, 24ae0121039s0104, and 24ae0121042h0004 to J. K.); programs for Bridging the gap between R&D and the iDeal society (society 5.0) and Generating Economic and social value (BRiDGE) to J. K.; G-7 Scholarship Foundation to K. H.; and the Hakubaku Co., Ltd. (Yamanashi, Japan). .. Data availability DNA sequencing data have been deposited in the DNA Databank of Japan (DDBJ) under the BioProject numbers PRJDB15701 (16S amplicon sequencing), PRJDB18854 (shotgun sequencing), and PRJDB18861 (RNA-seq). ..

    Shotgun Sequencing:

    Article Title: Metabolite-mediated interactions and direct contact between Fusobacterium varium and Faecalibacterium prausnitzii.
    Article Snippet: Funding This work was supported by the Ministry of Education, Culture, Sports, Science and Technology of Japan (MEXT)/Japan Society for the Promotion of Science KAKENHI (grant numbers 22K15004 and 22KK0257 to K. H.); the Japan Agency for Medical Research and Development (AMED, grant numbers 24ae0121035s0104, 24ae0121039s0104, and 24ae0121042h0004 to J. K.); programs for Bridging the gap between R&D and the iDeal society (society 5.0) and Generating Economic and social value (BRiDGE) to J. K.; G-7 Scholarship Foundation to K. H.; and the Hakubaku Co., Ltd. (Yamanashi, Japan). .. Data availability DNA sequencing data have been deposited in the DNA Databank of Japan (DDBJ) under the BioProject numbers PRJDB15701 (16S amplicon sequencing), PRJDB18854 (shotgun sequencing), and PRJDB18861 (RNA-seq). ..

    RNA Sequencing:

    Article Title: Metabolite-mediated interactions and direct contact between Fusobacterium varium and Faecalibacterium prausnitzii.
    Article Snippet: Funding This work was supported by the Ministry of Education, Culture, Sports, Science and Technology of Japan (MEXT)/Japan Society for the Promotion of Science KAKENHI (grant numbers 22K15004 and 22KK0257 to K. H.); the Japan Agency for Medical Research and Development (AMED, grant numbers 24ae0121035s0104, 24ae0121039s0104, and 24ae0121042h0004 to J. K.); programs for Bridging the gap between R&D and the iDeal society (society 5.0) and Generating Economic and social value (BRiDGE) to J. K.; G-7 Scholarship Foundation to K. H.; and the Hakubaku Co., Ltd. (Yamanashi, Japan). .. Data availability DNA sequencing data have been deposited in the DNA Databank of Japan (DDBJ) under the BioProject numbers PRJDB15701 (16S amplicon sequencing), PRJDB18854 (shotgun sequencing), and PRJDB18861 (RNA-seq). ..

    Article Title: Stimulation to secrete insulin induces pancreatic β-cell dysfunction through Tfe3 activation
    Article Snippet: .. • The next-generation sequencing data (RNA-seq and ChIP-seq) generated in this study has been deposited at the DNA DataBank of Japan (DDBJ) under bioproject number PRJDB35871 and are publicly available. ..

    Next-Generation Sequencing:

    Article Title: Stimulation to secrete insulin induces pancreatic β-cell dysfunction through Tfe3 activation
    Article Snippet: .. • The next-generation sequencing data (RNA-seq and ChIP-seq) generated in this study has been deposited at the DNA DataBank of Japan (DDBJ) under bioproject number PRJDB35871 and are publicly available. ..

    Chromatin Immunoprecipitation:

    Article Title: Stimulation to secrete insulin induces pancreatic β-cell dysfunction through Tfe3 activation
    Article Snippet: .. • The next-generation sequencing data (RNA-seq and ChIP-seq) generated in this study has been deposited at the DNA DataBank of Japan (DDBJ) under bioproject number PRJDB35871 and are publicly available. ..

    Generated:

    Article Title: Stimulation to secrete insulin induces pancreatic β-cell dysfunction through Tfe3 activation
    Article Snippet: .. • The next-generation sequencing data (RNA-seq and ChIP-seq) generated in this study has been deposited at the DNA DataBank of Japan (DDBJ) under bioproject number PRJDB35871 and are publicly available. ..



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    Data preprocessing workflow. When analyzing NGS datasets with KPop, one can optionally pre-process sequencing reads in order to eliminate biases and/or have the method focus on specific parts of the genome. For instance, one might align reads to a (pan-)genome and separate them into reads that align (likely to originate from the organism being studied) and reads that do not (likely to come from contaminations). Furthermore, reads that do map to the pan-genome might be separated into groups specific to different genomic features; for instance, one might align them to a set of MLST genes or AMR genes. Full k -mer spectra would then be separately obtained from each group of reads (contaminations, pan-genomic, MLST genes, AMR genes) and given as input to downstream/classification methods. The choice of the group of reads from which spectra are computed determines the set of sequences seen by the method, and hence the scope of the classification

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    Article Title: KPop: accurate and scalable comparative analysis of microbial genomes by sequence embeddings

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    Figure Lengend Snippet: Data preprocessing workflow. When analyzing NGS datasets with KPop, one can optionally pre-process sequencing reads in order to eliminate biases and/or have the method focus on specific parts of the genome. For instance, one might align reads to a (pan-)genome and separate them into reads that align (likely to originate from the organism being studied) and reads that do not (likely to come from contaminations). Furthermore, reads that do map to the pan-genome might be separated into groups specific to different genomic features; for instance, one might align them to a set of MLST genes or AMR genes. Full k -mer spectra would then be separately obtained from each group of reads (contaminations, pan-genomic, MLST genes, AMR genes) and given as input to downstream/classification methods. The choice of the group of reads from which spectra are computed determines the set of sequences seen by the method, and hence the scope of the classification

    Article Snippet: In order to do so, simulated next-generation sequencing (NGS) data was generated for each genome using ART [ ], emulating Illumina HiSeq 2500 paired-end reads of length 150 bp with an average coverage of 20-fold.

    Techniques: Sequencing