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genetic analysis  (StaGen Co Ltd)

 
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    StaGen Co Ltd genetic analysis
    Genetic Analysis, supplied by StaGen Co Ltd, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/next-generation+sequencing+data/next+generation+sequencing+data+processing/pm30810208-218-8-16
    Average 90 stars, based on 1 article reviews
    genetic analysis - by Bioz Stars, 2026-09
    90/100 stars

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    Related Articles

    other:

    Article Title: Genome-wide association meta-analysis and Mendelian randomization analysis confirm the influence of ALDH2 on sleep durationin the Japanese population.
    Article Snippet: We appreciate their support on genetic analysis from Dr. Satoru Saito and Dr. Mitsuhiro Amemiya at StaGen Co. Ltd., on English editing from Yukiko Kuru, and on sample preparation and genotyping from Dr. Hiromi Sakamoto, Dr. Teruhiko Yoshida and staff of the National Cancer Center Research Core Facility.

    Article Title: Association of primary ovarian insufficiency with a specific human leukocyte antigen haplotype (A*24:02-C*03:03-B*35:01) in Japanese women.
    Article Snippet: Primary ovarian insufficiency (POI) is a heterogeneous condition defined by the triad of oligo/amenorrhea, elevated gonadotropins and estrogen deficiency in women under the age of 40 years.. Although autoimmune abnormalities appear to be involved in the development of POI, there are only a few studies with respect to human leukocyte antigen (HLA).. The objective of this study was to identify an HLA allele(s) and/or haplotype(s) constituting a susceptibility factor(s) for POI.

    Sequencing:

    Article Title: Whole-exome sequencing reveals the genetic causes and modifiers of moyamoya syndrome.
    Article Snippet: .. We thank the DNA donors and the supporting medical staff for their contribution, Makiko Terada (Institute for Comprehensive Medical Sciences, Tokyo Women’s Medical University, Tokyo, Japan) for providing technical assistance, and Mitsuhiro Amemiya and Akira Saito (StaGen Co. Ltd., Tokyo, Japan) for processing the nextgeneration sequencing data. ..

    Next-Generation Sequencing:

    Article Title: Deletion in the Cobalamin Synthetase W Domain–Containing Protein 1 Gene Is associated with Congenital Anomalies of the Kidney and Urinary Tract
    Article Snippet: .. We also thank Mitsuhiro Amemiya and Akira Saito (StaGen Co. Ltd., Tokyo, Japan) for help with processing of the next-generation sequencing data. ..



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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

    Journal: Genome Biology

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

    doi: 10.1186/s13059-025-03585-8

    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