{"entity": "publication", "iuid": "be6e123262664fba87fb4902f91c49cb", "timestamp": "2026-08-20T20:45:29.814Z", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/be6e123262664fba87fb4902f91c49cb.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/be6e123262664fba87fb4902f91c49cb"}}, "title": "GenePioneer: a comprehensive Python package for identification of essential genes and modules in cancer.", "authors": [{"family": "Haerianardakani", "given": "Amirhossein", "initials": "A"}, {"family": "Taheri", "given": "Golnaz", "initials": "G", "orcid": "0000-0002-2741-0355", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/014c217121d346b2b371bbc1c2fede57.json"}}], "type": "journal article", "published": "2025-04-29", "journal": {"title": "Bioinform Adv", "issn": "2635-0041", "volume": "5", "issue": "1", "pages": "vbaf094", "issn-l": null}, "abstract": "We propose a network-based unsupervised learning model to identify essential cancer genes and modules for 12 different cancer types, supported by a Python package for practical application. The model constructs a gene network from frequently mutated genes and biological processes, ranks genes using topological features, and detects critical modules. Evaluation across cancer types confirms its effectiveness in prioritizing cancer-related genes and uncovering relevant modules. The Python package allows users to input gene lists, retrieve rankings, and identify associated modules. This work provides a robust method for gene prioritization and module detection, along with a user-friendly package to support research and clinical decision-making in cancer genomics.\n\nGenePioneer is released as an open-source software under the MIT license. The source code is available on GitHub at https://github.com/Golnazthr/ModuleDetection.", "doi": "10.1093/bioadv/vbaf094", "pmid": "40417653", "labels": [], "xrefs": [{"db": "pmc", "key": "PMC12098931"}, {"db": "pii", "key": "vbaf094"}], "notes": [], "created": "2026-08-20T09:39:08.522Z", "modified": "2026-08-20T09:39:08.584Z"}