{"about":{"site":"https://codewithpapers.app","non_affiliation":"Code with Papers and Syntology are not affiliated with, endorsed by, or sponsored by Papers with Code, Meta, or the pwc-archive mirror.","licence":"CC BY-SA 4.0","licence_url":"https://creativecommons.org/licenses/by-sa/4.0/legalcode","attribution":"https://codewithpapers.app/attribution","modified":"archive material modified by Syntology; see the attribution page"},"url":"/paper/efficient-and-accurate-causal-inference-with","title":"Efficient and accurate causal inference with hidden confounders from genome-transcriptome variation data","arxiv_id":"1611.01114","date":"2017-04-17","proceeding":null,"authors":[],"abstract":"Mapping gene expression as a quantitative trait using whole genome-sequencing\nand transcriptome analysis allows to discover the functional consequences of\ngenetic variation. We developed a novel method and ultra-fast software Findr\nfor higly accurate causal inference between gene expression traits using\ncis-regulatory DNA variations as causal anchors, which improves current methods\nby taking into account hidden confounders and weak regulations. Findr\noutperformed existing methods on the DREAM5 Systems Genetics challenge and on\nthe prediction of microRNA and transcription factor targets in human\nlymphoblastoid cells, while being nearly a million times faster. Findr is\npublicly available at https://github.com/lingfeiwang/findr","url_abs":"http://arxiv.org/abs/1611.01114v3","url_pdf":"http://arxiv.org/pdf/1611.01114v3.pdf","source":{"archive":"pwc-archive (Hugging Face), CC BY-SA 4.0","snapshot":"2025-07-28","licence_url":"https://creativecommons.org/licenses/by-sa/4.0/legalcode","row_kind":"abstracts"},"code_links":[{"paper_slug":"efficient-and-accurate-causal-inference-with","repo_url":"https://github.com/lingfeiwang/findr","is_official":1,"mentioned_in_paper":1,"mentioned_in_github":0,"framework":"none","reach":null}],"tasks":[{"task_slug":"causal-inference","task_name":"Causal Inference"}],"methods":[],"datasets_introduced":[],"methods_introduced":[],"results":[],"syntology":{"atlas_url":null,"mcp":null,"developers":"https://syntology.ai/developers"},"arxiv_metadata":null,"syntology_extracted_results":null}