CMB_2025v15n4

Computational Molecular Biology 2025, Vol.15, No.4, 208-217 http://bioscipublisher.com/index.php/cmb 21 7 Nguyen C., Nguyen T., Trivitt G., Capaldo B., Yan C., Chen Q., Renzette N., Topaloglu U., and Meerzaman D., 2025, Modular and cloud-based bioinformatics pipelines for high-confidence biomarker detection in cancer immunotherapy clinical trials, PLoS One, 20(8): e0330827. https://doi.org/10.1371/journal.pone.0330827 Samarakoon P., Fournous G., Hansen L., Wijesiri A., Zhao S., Alex A., Nandi T., Madduri R., Rowe A., Thomssen G., Hoving E., and Razick S., 2025, Benchmarking accelerated next-generation sequencing analysis pipelines, Bioinformatics Advances, 5(1): vbaf085. https://doi.org/10.1093/bioadv/vbaf085 Weißbach S., Sys S., Hewel C., Todorov H., Schweiger S., Winter J., Pfenninger M., Torkamani A., Evans D., Burger J., Everschor-Sitte K., May-Simera H., and Gerber S., 2021, Reliability of genomic variants across different next-generation sequencing platforms and bioinformatic processing pipelines, BMC Genomics, 22: 62. https://doi.org/10.1186/s12864-020-07362-8 Whiffin N., Brugger K., and Ahn J., 2016, Practice guidelines for development and validation of software, with particular focus on bioinformatics pipelines for processing NGS data in clinical diagnostic laboratories, PeerJ Preprints, 5: e2996v1. https://doi.org/10.7287/peerj.preprints.2996v1 Wilton R., and Szalay A., 2023, Short-read aligner performance in germline variant identification, Bioinformatics, 39(8): btad480. https://doi.org/10.1093/bioinformatics/btad480 Zerdes I., Filis P., Fountoukidis G., El-Naggar A., Kalofonou F., D’Alessio A., Pouptsis A., Foukakis T., Pentheroudakis G., Ahlgren J., Smith D., and Valachis A., 2025, Comprehensive genome profiling for treatment decisions in patients with metastatic tumors: real-world evidence meta-analysis and registry data implementation, JNCI: Journal of the National Cancer Institute, 117(6): 1117-1124. https://doi.org/10.1093/jnci/djaf015

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