{"id":{"repo_id":"mit","oai_identifier":"oai:dspace.mit.edu:1721.1/32313"},"canonical_url":"https://search.dev.ndltd.org/etd/mit/oai:dspace.mit.edu:1721.1/32313","repository":{"repo_id":"mit","name":"MIT","base_url":"https://dspace.mit.edu/oai/request"},"display":{"title":"Evolution and statistics of biological regulatory networks","abstract":"In this thesis, I study the process of evolution of the gene regulatory network in Escherichia coli. First, I characterize the portion of the network that has been documented, and then I simulate growth of the network. In this study, I assume that the network evolves by gene duplication and divergence. Initially, the duplicated gene will retain its old interactions. As the gene accumulates mutations, it gains new interactions and may or may not lose the old interactions. I investigate evidence for the duplication-divergence model by looking at the homology and regulatory networks in E. coli and propose a simple duplication-divergence model for growth. The results show that this simple model cannot fully account for the complexity in the real network fragment as measured by conventional metrics.","abstract_html":"In this thesis, I study the process of evolution of the gene regulatory network in Escherichia coli. First, I characterize the portion of the network that has been documented, and then I simulate growth of the network. In this study, I assume that the network evolves by gene duplication and divergence. Initially, the duplicated gene will retain its old interactions. As the gene accumulates mutations, it gains new interactions and may or may not lose the old interactions. I investigate evidence for the duplication-divergence model by looking at the homology and regulatory networks in E. coli and propose a simple duplication-divergence model for growth. The results show that this simple model cannot fully account for the complexity in the real network fragment as measured by conventional metrics.","abstract_has_math":false,"creators":["Chandalia, Juhi Kiran, 1979-"],"institution":"Massachusetts Institute of Technology","degree_name":null,"degree_level":null,"degree_discipline":null,"degree_department":"Massachusetts Institute of Technology. Dept. of Physics.","school":null,"contributors":[],"advisors":["Leonid Mirny."],"committee_chairs":[],"committee_members":[],"year":2005,"date_issued":"2005","date_published":"2005","updated_at":"2026-07-22T22:22:00Z","subjects":["Physics."],"languages":["eng"],"rights":["M.I.T. theses are protected by copyright. They may be viewed from this source for any purpose, but reproduction or distribution in any format is prohibited without written permission. See provided URL for inquiries about permission."],"rights_urls":["http://dspace.mit.edu/handle/1721.1/7582"],"identifier_entries":[]},"links":{"outbound_url":"http://hdl.handle.net/1721.1/32313","outbound_label":"Handle","outbound_source":"dc:identifier.uri"},"metadata_groups":[{"id":"people","label":"People","entries":[{"key":"dc:contributor.advisor","label":"Advisor","values":["Leonid Mirny."]},{"key":"dc:contributor.department","label":"Department","values":["Massachusetts Institute of Technology. Dept. of Physics."]},{"key":"dc:contributor.other","label":"Dc Contributor Other","values":["Massachusetts Institute of Technology. Dept. of Physics."]},{"key":"dc:creator","label":"Author","values":["Chandalia, Juhi Kiran, 1979-"]}]},{"id":"academic_context","label":"Academic Context","entries":[{"key":"dc:date.accessioned","label":"Dc Date Accessioned","values":["2006-03-29T18:33:20Z"]},{"key":"dc:date.available","label":"Dc Date Available","values":["2006-03-29T18:33:20Z"]},{"key":"dc:date.issued","label":"Date","values":["2005"]},{"key":"dc:publisher","label":"Institution","values":["Massachusetts Institute of Technology"]},{"key":"dc:type","label":"Dc Type","values":["Thesis"]}]},{"id":"subjects_keywords","label":"Subjects and Keywords","entries":[{"key":"dc:subject","label":"Dc Subject","values":["Physics."]}]},{"id":"language_rights","label":"Language and Rights","entries":[{"key":"dc:language.iso","label":"Language (ISO)","values":["eng"]},{"key":"dc:rights","label":"Dc Rights","values":["M.I.T. theses are protected by copyright. They may be viewed from this source for any purpose, but reproduction or distribution in any format is prohibited without written permission. See provided URL for inquiries about permission."]},{"key":"dc:rights.uri","label":"Rights URI","values":["http://dspace.mit.edu/handle/1721.1/7582"]}]},{"id":"identifiers","label":"Identifiers","entries":[{"key":"dc:identifier.uri","label":"Identifier URI","values":["http://hdl.handle.net/1721.1/32313"]}]},{"id":"additional","label":"Additional Metadata","entries":[{"key":"dc:description","label":"Description","values":["Thesis (S.M.)--Massachusetts Institute of Technology, Dept. of Physics, 2005.","Includes bibliographical references (p. 57-58)."]},{"key":"dc:description.abstract","label":"Abstract","values":["In this thesis, I study the process of evolution of the gene regulatory network in Escherichia coli. First, I characterize the portion of the network that has been documented, and then I simulate growth of the network. In this study, I assume that the network evolves by gene duplication and divergence. Initially, the duplicated gene will retain its old interactions. As the gene accumulates mutations, it gains new interactions and may or may not lose the old interactions. I investigate evidence for the duplication-divergence model by looking at the homology and regulatory networks in E. coli and propose a simple duplication-divergence model for growth. The results show that this simple model cannot fully account for the complexity in the real network fragment as measured by conventional metrics."]},{"key":"dc:description.degree","label":"Dc Description Degree","values":["S.M."]},{"key":"dc:format.mimetype","label":"Dc Format Mimetype","values":["application/pdf"]},{"key":"dc:title","label":"Title","values":["Evolution and statistics of biological regulatory networks"]}]}],"canonical_facts":{"dc:contributor.advisor":["Leonid Mirny."],"dc:contributor.department":["Massachusetts Institute of Technology. Dept. of Physics."],"dc:contributor.other":["Massachusetts Institute of Technology. Dept. of Physics."],"dc:creator":["Chandalia, Juhi Kiran, 1979-"],"dc:date.accessioned":["2006-03-29T18:33:20Z"],"dc:date.available":["2006-03-29T18:33:20Z"],"dc:date.issued":["2005"],"dc:description":["Thesis (S.M.)--Massachusetts Institute of Technology, Dept. of Physics, 2005.","Includes bibliographical references (p. 57-58)."],"dc:description.abstract":["In this thesis, I study the process of evolution of the gene regulatory network in Escherichia coli. First, I characterize the portion of the network that has been documented, and then I simulate growth of the network. In this study, I assume that the network evolves by gene duplication and divergence. Initially, the duplicated gene will retain its old interactions. As the gene accumulates mutations, it gains new interactions and may or may not lose the old interactions. I investigate evidence for the duplication-divergence model by looking at the homology and regulatory networks in E. coli and propose a simple duplication-divergence model for growth. The results show that this simple model cannot fully account for the complexity in the real network fragment as measured by conventional metrics."],"dc:description.degree":["S.M."],"dc:format.mimetype":["application/pdf"],"dc:identifier.uri":["http://hdl.handle.net/1721.1/32313"],"dc:language.iso":["eng"],"dc:publisher":["Massachusetts Institute of Technology"],"dc:rights":["M.I.T. theses are protected by copyright. They may be viewed from this source for any purpose, but reproduction or distribution in any format is prohibited without written permission. See provided URL for inquiries about permission."],"dc:rights.uri":["http://dspace.mit.edu/handle/1721.1/7582"],"dc:subject":["Physics."],"dc:title":["Evolution and statistics of biological regulatory networks"],"dc:type":["Thesis"]},"updated_at":"2026-07-22T22:22:00Z"}