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A database of restriction maps to expand the utility of bacterial artificial chromosomes
While Bacterial Artificial Chromosomes libraries were once a key resource for the genomic community, they have been obviated, for sequencing purposes, by long-read technologies. Such libraries may now serve as a valuable resource for manipulating and assembling large genomic constructs. To enhance a...
Autores principales: | , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
GigaScience Press
2023
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10518450/ https://www.ncbi.nlm.nih.gov/pubmed/37753479 http://dx.doi.org/10.46471/gigabyte.93 |
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author | Winden, Eamon Vasquez-Echeverri, Alejandro Calle-Castañeda, Susana Lian, Yumin Hernandez Ortiz, Juan Pablo Schwartz, David C. |
author_facet | Winden, Eamon Vasquez-Echeverri, Alejandro Calle-Castañeda, Susana Lian, Yumin Hernandez Ortiz, Juan Pablo Schwartz, David C. |
author_sort | Winden, Eamon |
collection | PubMed |
description | While Bacterial Artificial Chromosomes libraries were once a key resource for the genomic community, they have been obviated, for sequencing purposes, by long-read technologies. Such libraries may now serve as a valuable resource for manipulating and assembling large genomic constructs. To enhance accessibility and comparison, we have developed a BAC restriction map database. Using information from the National Center for Biotechnology Information’s cloneDB FTP site, we constructed a database containing the restriction maps for both uniquely placed and insert-sequenced BACs from 11 libraries covering the recognition sequences of the available restriction enzymes. Along with the database, we generated a set of Python functions to reconstruct the database and more easily access the information within. This data is valuable for researchers simply using BACs, as well as those working with larger sections of the genome in terms of synthetic genes, large-scale editing, and mapping. |
format | Online Article Text |
id | pubmed-10518450 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2023 |
publisher | GigaScience Press |
record_format | MEDLINE/PubMed |
spelling | pubmed-105184502023-09-26 A database of restriction maps to expand the utility of bacterial artificial chromosomes Winden, Eamon Vasquez-Echeverri, Alejandro Calle-Castañeda, Susana Lian, Yumin Hernandez Ortiz, Juan Pablo Schwartz, David C. GigaByte Data Release While Bacterial Artificial Chromosomes libraries were once a key resource for the genomic community, they have been obviated, for sequencing purposes, by long-read technologies. Such libraries may now serve as a valuable resource for manipulating and assembling large genomic constructs. To enhance accessibility and comparison, we have developed a BAC restriction map database. Using information from the National Center for Biotechnology Information’s cloneDB FTP site, we constructed a database containing the restriction maps for both uniquely placed and insert-sequenced BACs from 11 libraries covering the recognition sequences of the available restriction enzymes. Along with the database, we generated a set of Python functions to reconstruct the database and more easily access the information within. This data is valuable for researchers simply using BACs, as well as those working with larger sections of the genome in terms of synthetic genes, large-scale editing, and mapping. GigaScience Press 2023-09-20 /pmc/articles/PMC10518450/ /pubmed/37753479 http://dx.doi.org/10.46471/gigabyte.93 Text en © The Author(s) 2023. https://creativecommons.org/licenses/by/4.0/This is an Open Access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Data Release Winden, Eamon Vasquez-Echeverri, Alejandro Calle-Castañeda, Susana Lian, Yumin Hernandez Ortiz, Juan Pablo Schwartz, David C. A database of restriction maps to expand the utility of bacterial artificial chromosomes |
title | A database of restriction maps to expand the utility of bacterial artificial chromosomes |
title_full | A database of restriction maps to expand the utility of bacterial artificial chromosomes |
title_fullStr | A database of restriction maps to expand the utility of bacterial artificial chromosomes |
title_full_unstemmed | A database of restriction maps to expand the utility of bacterial artificial chromosomes |
title_short | A database of restriction maps to expand the utility of bacterial artificial chromosomes |
title_sort | database of restriction maps to expand the utility of bacterial artificial chromosomes |
topic | Data Release |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10518450/ https://www.ncbi.nlm.nih.gov/pubmed/37753479 http://dx.doi.org/10.46471/gigabyte.93 |
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