Editorial: High-Throughput Sequencing-Based Investigation of Chronic Disease Markers and Mechanisms

Abstract

Editorial on the Research Topic High-throughput sequencing-based investigation of chronic disease markers and mechanismsThis "High-throughput sequencing-based investigation of chronic disease markers and mechanisms" issue focuses on the genomics studies on cancer and chronic diseases. With the recent development of sequencing technology and the rapid reduction of sequencing costs, high-throughput sequencing (including second and third-generation sequencing) is revolutionizing basic life science research and clinical research. High-throughput sequencing often produces millions of sequencing reads at a time, and the alignment or assembly of these reads allows determination of various mutations at the genomic level, accurate gene expression quantification at the transcriptomic level, and identification of histone or DNA modification at the epigenomic level. The resulting accumulation of enormous multi-omics information has opened up a new era of finding effective disease markers and studying their roles in disease occurrence and development (Anashkina et al., 2021).Using high-throughput sequencing, various markers of chronic diseases have been developed at all omics levels, which have been used for diagnosis and classification of diseases, prediction of treatment effects, and prevention of diseases (Voronova et al., 2020;Glukhov et al., 2021). The chronic diseases include cancer, heart disease, diabetes, arthritis. The quickly and massively acquired multi-omics data, together with newly developed algorithms, provide excellent opportunities for the identification of more reliable biomarkers. This Research Topic aimed at 1) developing new chronic disease markers at four levels (i.e., genome, epigenome, transcriptome, and translatome) with the help of highthroughput sequencing, and 2) delineating potential marker-related mechanisms for chronic disease occurrence or development. More specifically, this Research Topic contains contributions including: 1) Identification of novel biomarkers and prediction signatures for chronic disease detection or prognosis prediction using high-throughput sequencing; 2) Analysis the possible pathological causes of markers as well as the potential roles they play in disease initiation and development; 3) Applications of new high-throughput sequencing techniques facilitating the development of more effective biomarkers of chronic disease;

Editorial: Population and ancestry specific variation in disease susceptibility

“…The current Topic complements the recent Research Topic series “Bioinformatics of Genome Regulation” ( https://www.frontiersin.org/research-topics/40408/bioinformatics-of-genome-regulation-and-systems-biology-volume-iii ) in Frontiers in Genetics that considered genetic backgrounds rather than molecular mechanisms of the human diseases ( Orlov et al, 2021a ; Anashkina et al, 2023 ). The articles published in this Research Topic extend the studies presented in Frontiers in Genetics Topics on gene expression regulation and high-throughput sequencing in chronic disease markers ( https://www.frontiersin.org/research-topics/53085/high-throughput-sequencing-based-investigation-of-chronic-disease-markers-and-mechanisms-volume-ii ) ( Orlov et al, 2022 ). Recently, we had a series of publications on human ancestry based on genomics data ( Das et al, 2020 ; Orlov et al, 2021b ) that were associated with the BGRS\SB (Bioinformatics of Genome Regulation and Structure\Systems Biology) conference series and bioinformatics studies ( Orlov et al, 2016 ; Orlov and Baranova, 2020 ; Anashkina et al, 2021 ) that have been widely presented at Frontiers in Genetics Research Topics since 2014 ( Orlov et al, 2015 ).…”

“…Thus, this Research Topic presents a series of research works on population-specific variation in human diseases ( Al Madhoun et al, 2022 ; Cullina et al, 2023 ; James et al, 2023 ; Sezgin and Kaplan, 2022 ). The complementary Research Topic in Frontiers in Genetics named “High-throughput Sequencing-based Investigation of Chronic Disease Markers and Mechanisms, Volume II” ( https://www.frontiersin.org/research-topics/53085/high-throughput-sequencing-based-investigation-of-chronic-disease-markers-and-mechanisms-volume-ii ) continues the collection of articles on the markers of human diseases ( Orlov et al, 2022 ).…”

“…Research Topic extend the studies presented in Frontiers in Genetics Topics on gene expression regulation and high-throughput sequencing in chronic disease markers (https://www.frontiersin. org/research-topics/53085/high-throughput-sequencing-basedinvestigation-of-chronic-disease-markers-and-mechanismsvolume-ii) (Orlov et al, 2022). Recently, we had a series of publications on human ancestry based on genomics data (Das et al, 2020;Orlov et al, 2021b) that were associated with the BGRS\SB (Bioinformatics of Genome Regulation and Structure\Systems Biology) conference series and bioinformatics studies (Orlov et al, 2016;Orlov and Baranova, 2020;Anashkina et al, 2021) that have been widely presented at Frontiers in Genetics Research Topics since 2014 (Orlov et al, 2015).…”

Editorial: Bioinformatics of genome regulation and systems biology, Volume III

“…The BGRS conference series materials on bioinformatics and gene expression regulation at gene, chromosome, and genome levels have been widely presented in the special journal Research Topic ( Orlov et al, 2016 ; Orlov et al, 2019 ; Tatarinova et al, 2019 ). Recently, Frontiers in Genetics Research Topics continue discussion of these science problems ( Tatarinova et al, 2019 ; Orlov et al, 2021b ; Das et al, 2022 ; Orlov et al, 2022 ). We have to acknowledge continuing the thematic journal Research Topic “Bioinformatics of Gene Regulations” ( Orlov et al, 2021b ) at MDPI IJMS ( https://www.mdpi.com/journal/ijms/special_issues/MVA479KFR7 ).…”

BGRS: bioinformatics of genome regulation and data integration

“…The BGRS conference series has a history of initiating successful Special Issues on bioinformatics in the bioinformatics journals. The recent examples include special issues at Frontiers in genetics and MDPI International Journal of Molecular Sciences on biomedical applications – “High-Throughput Sequencing-Based Investigation of Chronic Disease Markers and Mechanisms” [ 29 ], “Medical Genetics, Genomics and Bioinformatics” [ 30 , 31 ], and on plant biology – special issue “Plant Biology and Biotechnology” [ 32 ]. We have presented special issues “Research Topics of the Bioinformatics of Gene Regulation” [ 33 ], and the series of the matical issues on genome regulation and systems biology at Frontiers in Genetics journal – Research Topic “Bioinformatics of genome regulation and systems biology” repeating the BGRS conference name and collecting the materials discussed at BGRS\SB meetings [ 34 , 35 ].…”