{"id":{"repo_id":"uiuc","oai_identifier":"oai:www.ideals.illinois.edu:2142/122088"},"canonical_url":"https://search.dev.ndltd.org/etd/uiuc/oai:www.ideals.illinois.edu:2142/122088","repository":{"repo_id":"uiuc","name":"University of Illinois - Urbana-Champaign","base_url":"https://www.ideals.illinois.edu/oai-pmh"},"display":{"title":"Probing statistical patterns across the tree of life: Comparative methods for microbial genomes and traits","abstract":"Submission published under a 24 month embargo labeled 'U of I Access', the embargo will last until 2025-12-01","abstract_html":"Submission published under a 24 month embargo labeled 'U of I Access', the embargo will last until 2025-12-01","abstract_has_math":false,"creators":["Li, Zeqian"],"institution":"University of Illinois at Urbana-Champaign","degree_name":"Ph.D.","degree_level":"Dissertation","degree_discipline":"Physics","degree_department":null,"school":null,"contributors":["Kuehn, Seppe","Song, Jun","Maslov, Sergei","Coleman, Maureen"],"advisors":[],"committee_chairs":[],"committee_members":[],"year":2023,"date_issued":"2023-12","date_published":"2023-12","updated_at":"2026-07-22T22:25:00Z","subjects":["Microbial Ecology"],"languages":["en","eng"],"rights":["Copyright 2023 Zeqian Li"],"rights_urls":[],"identifier_entries":[]},"links":{"outbound_url":"https://hdl.handle.net/2142/122088","outbound_label":"Handle","outbound_source":"dc:identifier"},"metadata_groups":[{"id":"people","label":"People","entries":[{"key":"dc:contributor","label":"Contributor","values":["Kuehn, Seppe","Song, Jun","Maslov, Sergei","Coleman, Maureen"]},{"key":"dc:creator","label":"Author","values":["Li, Zeqian"]}]},{"id":"academic_context","label":"Academic Context","entries":[{"key":"dc:date","label":"Dc Date","values":["2023-12","2023-07-31"]},{"key":"dc:type","label":"Dc Type","values":["text"]},{"key":"thesis:degree_discipline","label":"Discipline","values":["Physics"]},{"key":"thesis:degree_level","label":"Degree Level","values":["Dissertation"]},{"key":"thesis:degree_name","label":"Degree Name","values":["Ph.D."]},{"key":"thesis:institution_name","label":"Thesis Institution Name","values":["University of Illinois at Urbana-Champaign"]}]},{"id":"subjects_keywords","label":"Subjects and Keywords","entries":[{"key":"dc:subject","label":"Dc Subject","values":["Microbial Ecology"]}]},{"id":"language_rights","label":"Language and Rights","entries":[{"key":"dc:language","label":"Dc Language","values":["en","eng"]},{"key":"dc:rights","label":"Dc Rights","values":["Copyright 2023 Zeqian Li"]}]},{"id":"identifiers","label":"Identifiers","entries":[{"key":"dc:identifier","label":"Identifier","values":["https://hdl.handle.net/2142/122088"]}]},{"id":"additional","label":"Additional Metadata","entries":[{"key":"dc:description","label":"Description","values":["Submission published under a 24 month embargo labeled 'U of I Access', the embargo will last until 2025-12-01","The student, Zeqian Li, accepted the attached license on 2023-07-24 at 10:56.","The student, Zeqian Li, submitted this Dissertation for approval on 2023-07-24 at 11:03.","This Dissertation was approved for publication on 2023-07-31 at 15:37.","DSpace SAF Submission Ingestion Package generated from Vireo submission #19783 on 2024-03-01 at 13:29:12","Microbes are essential to the global ecosystem and constitute most biodiversity observed in the tree of life. In understanding microbes from natural environments, the central problem is to predict microbial community functions (phenotypes) from structures (composition and genetic content). While community structure measure- ment became accessible through next-generation sequencing, mapping the structure to function remains challenging due to difficulties in each level of the sequence-protein-metabolism-community hierarchy for diverse microbes. To address this challenge, comparative methods serve as a powerful data-driven tool, by identifying dominant statistical patterns in biological data, linking these patterns to biological phenomena, and ultimately accurately predicting functions from structures. In this dissertation, I present my contributions to five projects that employ comparative methods to address the structure-function mapping problem in microbial communities within the sequence-protein-metabolism-community hierarchy. These projects include the statistical prediction of microbial metabolic traits from genomes, the discovery of novel constraints in the genome organization of closely related microbial strains, the investigation of co-evolution patterns within the denitrification pathway, and the measurement of two novel microbial traits using a theoretical framework of chemical equilibria."]},{"key":"dc:format","label":"Dc Format","values":["application/pdf"]},{"key":"dc:title","label":"Title","values":["Probing statistical patterns across the tree of life: Comparative methods for microbial genomes and traits"]}]}],"canonical_facts":{"dc:contributor":["Kuehn, Seppe","Song, Jun","Maslov, Sergei","Coleman, Maureen"],"dc:creator":["Li, Zeqian"],"dc:date":["2023-12","2023-07-31"],"dc:description":["Submission published under a 24 month embargo labeled 'U of I Access', the embargo will last until 2025-12-01","The student, Zeqian Li, accepted the attached license on 2023-07-24 at 10:56.","The student, Zeqian Li, submitted this Dissertation for approval on 2023-07-24 at 11:03.","This Dissertation was approved for publication on 2023-07-31 at 15:37.","DSpace SAF Submission Ingestion Package generated from Vireo submission #19783 on 2024-03-01 at 13:29:12","Microbes are essential to the global ecosystem and constitute most biodiversity observed in the tree of life. In understanding microbes from natural environments, the central problem is to predict microbial community functions (phenotypes) from structures (composition and genetic content). While community structure measure- ment became accessible through next-generation sequencing, mapping the structure to function remains challenging due to difficulties in each level of the sequence-protein-metabolism-community hierarchy for diverse microbes. To address this challenge, comparative methods serve as a powerful data-driven tool, by identifying dominant statistical patterns in biological data, linking these patterns to biological phenomena, and ultimately accurately predicting functions from structures. In this dissertation, I present my contributions to five projects that employ comparative methods to address the structure-function mapping problem in microbial communities within the sequence-protein-metabolism-community hierarchy. These projects include the statistical prediction of microbial metabolic traits from genomes, the discovery of novel constraints in the genome organization of closely related microbial strains, the investigation of co-evolution patterns within the denitrification pathway, and the measurement of two novel microbial traits using a theoretical framework of chemical equilibria."],"dc:format":["application/pdf"],"dc:identifier":["https://hdl.handle.net/2142/122088"],"dc:language":["en","eng"],"dc:rights":["Copyright 2023 Zeqian Li"],"dc:subject":["Microbial Ecology"],"dc:title":["Probing statistical patterns across the tree of life: Comparative methods for microbial genomes and traits"],"dc:type":["text"],"thesis:degree_discipline":["Physics"],"thesis:degree_level":["Dissertation"],"thesis:degree_name":["Ph.D."],"thesis:institution_name":["University of Illinois at Urbana-Champaign"]},"updated_at":"2026-07-22T22:25:00Z"}