{"id":{"repo_id":"mit","oai_identifier":"oai:dspace.mit.edu:1721.1/34868"},"canonical_url":"https://search.dev.ndltd.org/etd/mit/oai:dspace.mit.edu:1721.1/34868","repository":{"repo_id":"mit","name":"MIT","base_url":"https://dspace.mit.edu/oai/request"},"display":{"title":"Genome sequencing technology : improvement of the electrophoretic sequencing process and analysis of the sequencing tool industry","abstract":"A primary bottleneck in DNA-sequencing operations is the capacity of the detection process. Although today's capillary electrophoresis DNA sequencers are faster, more sensitive, and more reliable than their precursors, high purchasing and running costs still make them a limiting factor in most laboratories like those of the Broad Institute. It is important to run those sequencers as efficiently as possible to reduce costs while producing robust assemblies. Polymer media for electrophoresis is the most important determinant for sequencing throughput. This thesis investigates the effect of polymer media on the performance of Applied Biosystems (ABI) 3730xl, the de-facto standard of DNA sequencers and develops analysis procedures for ABI3730xl system and its data. Due to its use in the human genome project (HGP), ABI has established a monopolistic position in the DNA-sequencing tool industry. As the de-facto standard of DNA sequencers ABI3730xl is highly automated, well-optimized, and black-boxed, despite the importance of higher throughput sequencing for diagnostic applications, third parties have found it difficult to improve sequencing methods.","abstract_html":"A primary bottleneck in DNA-sequencing operations is the capacity of the detection process. Although today's capillary electrophoresis DNA sequencers are faster, more sensitive, and more reliable than their precursors, high purchasing and running costs still make them a limiting factor in most laboratories like those of the Broad Institute. It is important to run those sequencers as efficiently as possible to reduce costs while producing robust assemblies. Polymer media for electrophoresis is the most important determinant for sequencing throughput. This thesis investigates the effect of polymer media on the performance of Applied Biosystems (ABI) 3730xl, the de-facto standard of DNA sequencers and develops analysis procedures for ABI3730xl system and its data. Due to its use in the human genome project (HGP), ABI has established a monopolistic position in the DNA-sequencing tool industry. As the de-facto standard of DNA sequencers ABI3730xl is highly automated, well-optimized, and black-boxed, despite the importance of higher throughput sequencing for diagnostic applications, third parties have found it difficult to improve sequencing methods.","abstract_has_math":false,"creators":["Maruyama, Kazunori, Ph. D. Mie University"],"institution":"Massachusetts Institute of Technology","degree_name":null,"degree_level":null,"degree_discipline":null,"degree_department":"Leaders for Manufacturing Program at MIT","school":null,"contributors":[],"advisors":["Roy E. Welsch and Patrick S. Doyle."],"committee_chairs":[],"committee_members":[],"year":2005,"date_issued":"2005","date_published":"2005","updated_at":"2026-07-22T22:22:23Z","subjects":["Chemical Engineering.","Sloan School of Management.","Leaders for Manufacturing Program."],"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/1721.1/34868","outbound_label":"Handle","outbound_source":"dc:identifier.uri"},"metadata_groups":[{"id":"people","label":"People","entries":[{"key":"dc:contributor.advisor","label":"Advisor","values":["Roy E. Welsch and Patrick S. Doyle."]},{"key":"dc:contributor.department","label":"Department","values":["Leaders for Manufacturing Program at MIT","Massachusetts Institute of Technology. Department of Chemical Engineering","Sloan School of Management"]},{"key":"dc:contributor.other","label":"Dc Contributor Other","values":["Leaders for Manufacturing Program."]},{"key":"dc:creator","label":"Author","values":["Maruyama, Kazunori, Ph. D. Mie University"]}]},{"id":"academic_context","label":"Academic Context","entries":[{"key":"dc:date.accessioned","label":"Dc Date Accessioned","values":["2006-11-08T16:52:26Z"]},{"key":"dc:date.available","label":"Dc Date Available","values":["2006-11-08T16:52:26Z"]},{"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":["Chemical Engineering.","Sloan School of Management.","Leaders for Manufacturing Program."]}]},{"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/1721.1/34868"]}]},{"id":"additional","label":"Additional Metadata","entries":[{"key":"dc:description","label":"Description","values":["Thesis (M.B.A.)--Massachusetts Institute of Technology, Sloan School of Management; and, (S.M.)--Massachusetts Institute of Technology, Dept. of Chemical Engineering; in conjunction with the Leaders for Manufacturing Program at MIT, 2005.","Includes bibliographical references."]},{"key":"dc:description.abstract","label":"Abstract","values":["A primary bottleneck in DNA-sequencing operations is the capacity of the detection process. Although today's capillary electrophoresis DNA sequencers are faster, more sensitive, and more reliable than their precursors, high purchasing and running costs still make them a limiting factor in most laboratories like those of the Broad Institute. It is important to run those sequencers as efficiently as possible to reduce costs while producing robust assemblies. Polymer media for electrophoresis is the most important determinant for sequencing throughput. This thesis investigates the effect of polymer media on the performance of Applied Biosystems (ABI) 3730xl, the de-facto standard of DNA sequencers and develops analysis procedures for ABI3730xl system and its data. Due to its use in the human genome project (HGP), ABI has established a monopolistic position in the DNA-sequencing tool industry. As the de-facto standard of DNA sequencers ABI3730xl is highly automated, well-optimized, and black-boxed, despite the importance of higher throughput sequencing for diagnostic applications, third parties have found it difficult to improve sequencing methods.","(cont.) This thesis also conducts an analysis of the DNA-sequencing tool industry to discuss how ABI has established current monopolistic status, what kind of business model would be attractive for ABI in the post-HGP period, how new companies can successfully enter this industry, and how they can keep improving DNA-sequencing throughput along the line of \"Moore's law\"."]},{"key":"dc:description.degree","label":"Dc Description Degree","values":["S.M.","M.B.A."]},{"key":"dc:format.mimetype","label":"Dc Format Mimetype","values":["application/pdf"]},{"key":"dc:title","label":"Title","values":["Genome sequencing technology : improvement of the electrophoretic sequencing process and analysis of the sequencing tool industry"]}]}],"canonical_facts":{"dc:contributor.advisor":["Roy E. Welsch and Patrick S. Doyle."],"dc:contributor.department":["Leaders for Manufacturing Program at MIT","Massachusetts Institute of Technology. Department of Chemical Engineering","Sloan School of Management"],"dc:contributor.other":["Leaders for Manufacturing Program."],"dc:creator":["Maruyama, Kazunori, Ph. D. Mie University"],"dc:date.accessioned":["2006-11-08T16:52:26Z"],"dc:date.available":["2006-11-08T16:52:26Z"],"dc:date.issued":["2005"],"dc:description":["Thesis (M.B.A.)--Massachusetts Institute of Technology, Sloan School of Management; and, (S.M.)--Massachusetts Institute of Technology, Dept. of Chemical Engineering; in conjunction with the Leaders for Manufacturing Program at MIT, 2005.","Includes bibliographical references."],"dc:description.abstract":["A primary bottleneck in DNA-sequencing operations is the capacity of the detection process. Although today's capillary electrophoresis DNA sequencers are faster, more sensitive, and more reliable than their precursors, high purchasing and running costs still make them a limiting factor in most laboratories like those of the Broad Institute. It is important to run those sequencers as efficiently as possible to reduce costs while producing robust assemblies. Polymer media for electrophoresis is the most important determinant for sequencing throughput. This thesis investigates the effect of polymer media on the performance of Applied Biosystems (ABI) 3730xl, the de-facto standard of DNA sequencers and develops analysis procedures for ABI3730xl system and its data. Due to its use in the human genome project (HGP), ABI has established a monopolistic position in the DNA-sequencing tool industry. As the de-facto standard of DNA sequencers ABI3730xl is highly automated, well-optimized, and black-boxed, despite the importance of higher throughput sequencing for diagnostic applications, third parties have found it difficult to improve sequencing methods.","(cont.) This thesis also conducts an analysis of the DNA-sequencing tool industry to discuss how ABI has established current monopolistic status, what kind of business model would be attractive for ABI in the post-HGP period, how new companies can successfully enter this industry, and how they can keep improving DNA-sequencing throughput along the line of \"Moore's law\"."],"dc:description.degree":["S.M.","M.B.A."],"dc:format.mimetype":["application/pdf"],"dc:identifier.uri":["http://hdl.handle.net/1721.1/34868"],"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":["Chemical Engineering.","Sloan School of Management.","Leaders for Manufacturing Program."],"dc:title":["Genome sequencing technology : improvement of the electrophoretic sequencing process and analysis of the sequencing tool industry"],"dc:type":["Thesis"]},"updated_at":"2026-07-22T22:22:23Z"}