{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,7,30]],"date-time":"2025-07-30T11:43:46Z","timestamp":1753875826291,"version":"3.41.2"},"reference-count":12,"publisher":"Oxford University Press (OUP)","issue":"6","license":[{"start":{"date-parts":[[2025,6,24]],"date-time":"2025-06-24T00:00:00Z","timestamp":1750723200000},"content-version":"vor","delay-in-days":23,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/100005825","name":"National Institute of Food and Agriculture","doi-asserted-by":"publisher","award":["2020-67013-31184"],"award-info":[{"award-number":["2020-67013-31184"]}],"id":[{"id":"10.13039\/100005825","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2025,6,2]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:sec>\n                  <jats:title>Summary<\/jats:title>\n                  <jats:p>Batch yeast two-hybrid (Y2H) assays, leveraged with next-generation sequencing, have afforded successful innovations for the analysis of protein\u2013protein interactions. NGPINT is a Conda-based software designed to process the millions of raw sequencing reads resulting from Y2H\u2013next-generation interaction screens. Over time, increasing compatibility and dependency issues have prevented clean NGPINT installation and operation. A system-wide update was essential to continue effective use with its companion software, Y2H-SCORES. We present NGPINT V3, a containerized implementation built with both Singularity and Docker, allowing accessibility across virtually any operating system and computing environment.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Availability and implementation<\/jats:title>\n                  <jats:p>This update includes streamlined dependencies and container images hosted on Sylabs (https:\/\/cloud.sylabs.io\/library\/schuyler\/ngpint\/ngpint) and Dockerhub (https:\/\/hub.docker.com\/r\/schuylerds\/ngpint), facilitating easier adoption and integration into high-throughput and cloud-computing workflows. Full instructions and software can be also found in the GitHub repository https:\/\/github.com\/Wiselab2\/NGPINT_V3 and Zenodo https:\/\/doi.org\/10.5281\/zenodo.15256036.<\/jats:p>\n               <\/jats:sec>","DOI":"10.1093\/bioinformatics\/btaf343","type":"journal-article","created":{"date-parts":[[2025,6,29]],"date-time":"2025-06-29T05:03:48Z","timestamp":1751173428000},"source":"Crossref","is-referenced-by-count":0,"title":["NGPINT V3: a containerized orchestration Python software for discovery of next-generation protein\u2013protein interactions"],"prefix":"10.1093","volume":"41","author":[{"ORCID":"https:\/\/orcid.org\/0000-0001-5720-5611","authenticated-orcid":false,"given":"Schuyler D","family":"Smith","sequence":"first","affiliation":[{"name":"Department of Plant Pathology, Entomology, and Microbiology, Iowa State University , Ames, IA 50011,","place":["United States"]},{"name":"Oak Ridge Institute for Science and Education (ORISE) , Oak Ridge, TN 37831,","place":["United 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