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DNA methylation dataset of bovine embryonic fibroblast cells treated with epigenetic modifiers and divergent energy supply
Fetal programming is established early in life, likely through epigenetic mechanisms that control gene expression. Micronutrients can act as epigenetic modifiers (EM) by modulating the genome through mechanisms that include DNA methylation and post-translational modification of chromatin. Among the...
Autores principales: | , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Elsevier
2022
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8980535/ https://www.ncbi.nlm.nih.gov/pubmed/35392625 http://dx.doi.org/10.1016/j.dib.2022.108074 |
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author | Diniz, Wellison J.S. Crouse, Matthew S. Caton, Joel S. Claycombe-Larson, Kate J. Lindholm-Perry, Amanda K. Reynolds, Lawrence P. Dahlen, Carl R. Borowicz, Pawel P. Ward, Alison K. |
author_facet | Diniz, Wellison J.S. Crouse, Matthew S. Caton, Joel S. Claycombe-Larson, Kate J. Lindholm-Perry, Amanda K. Reynolds, Lawrence P. Dahlen, Carl R. Borowicz, Pawel P. Ward, Alison K. |
author_sort | Diniz, Wellison J.S. |
collection | PubMed |
description | Fetal programming is established early in life, likely through epigenetic mechanisms that control gene expression. Micronutrients can act as epigenetic modifiers (EM) by modulating the genome through mechanisms that include DNA methylation and post-translational modification of chromatin. Among the EM, methionine, choline, folate, and vitamin B(12) have been suggested as key players of DNA methylation. However, the effects of supplementing these four EM, involved in the methionine folate cycle on DNA methylation, are still under investigation. This manuscript provides the genome-wide DNA methylation dataset (GSE180362) of bovine embryonic fibroblast cells exposed to different supplementation levels of glucose and methionine, choline, folate, and vitamin B(12) (collectively named as Epigenetic Modifiers - EM). The DNA methylation was measured using MSP-I digestion and Reduced Representation Bisulfite Sequencing. Bioinformatics analyses included data quality control, read mapping, methylation calling, and differential methylation analyses. Supplementary file S1 and data analysis codes are within this article. To our knowledge, this is the first dataset investigating the effects of four EM in bovine embryonic fibroblast DNA methylation profiles. Furthermore, this data and its findings provide information on putative candidate genes responsive to DNA methylation due to EM supplementation. |
format | Online Article Text |
id | pubmed-8980535 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2022 |
publisher | Elsevier |
record_format | MEDLINE/PubMed |
spelling | pubmed-89805352022-04-06 DNA methylation dataset of bovine embryonic fibroblast cells treated with epigenetic modifiers and divergent energy supply Diniz, Wellison J.S. Crouse, Matthew S. Caton, Joel S. Claycombe-Larson, Kate J. Lindholm-Perry, Amanda K. Reynolds, Lawrence P. Dahlen, Carl R. Borowicz, Pawel P. Ward, Alison K. Data Brief Data Article Fetal programming is established early in life, likely through epigenetic mechanisms that control gene expression. Micronutrients can act as epigenetic modifiers (EM) by modulating the genome through mechanisms that include DNA methylation and post-translational modification of chromatin. Among the EM, methionine, choline, folate, and vitamin B(12) have been suggested as key players of DNA methylation. However, the effects of supplementing these four EM, involved in the methionine folate cycle on DNA methylation, are still under investigation. This manuscript provides the genome-wide DNA methylation dataset (GSE180362) of bovine embryonic fibroblast cells exposed to different supplementation levels of glucose and methionine, choline, folate, and vitamin B(12) (collectively named as Epigenetic Modifiers - EM). The DNA methylation was measured using MSP-I digestion and Reduced Representation Bisulfite Sequencing. Bioinformatics analyses included data quality control, read mapping, methylation calling, and differential methylation analyses. Supplementary file S1 and data analysis codes are within this article. To our knowledge, this is the first dataset investigating the effects of four EM in bovine embryonic fibroblast DNA methylation profiles. Furthermore, this data and its findings provide information on putative candidate genes responsive to DNA methylation due to EM supplementation. Elsevier 2022-03-22 /pmc/articles/PMC8980535/ /pubmed/35392625 http://dx.doi.org/10.1016/j.dib.2022.108074 Text en © 2022 The Author(s). Published by Elsevier Inc. https://creativecommons.org/licenses/by/4.0/This is an open access article under the CC BY license (http://creativecommons.org/licenses/by/4.0/). |
spellingShingle | Data Article Diniz, Wellison J.S. Crouse, Matthew S. Caton, Joel S. Claycombe-Larson, Kate J. Lindholm-Perry, Amanda K. Reynolds, Lawrence P. Dahlen, Carl R. Borowicz, Pawel P. Ward, Alison K. DNA methylation dataset of bovine embryonic fibroblast cells treated with epigenetic modifiers and divergent energy supply |
title | DNA methylation dataset of bovine embryonic fibroblast cells treated with epigenetic modifiers and divergent energy supply |
title_full | DNA methylation dataset of bovine embryonic fibroblast cells treated with epigenetic modifiers and divergent energy supply |
title_fullStr | DNA methylation dataset of bovine embryonic fibroblast cells treated with epigenetic modifiers and divergent energy supply |
title_full_unstemmed | DNA methylation dataset of bovine embryonic fibroblast cells treated with epigenetic modifiers and divergent energy supply |
title_short | DNA methylation dataset of bovine embryonic fibroblast cells treated with epigenetic modifiers and divergent energy supply |
title_sort | dna methylation dataset of bovine embryonic fibroblast cells treated with epigenetic modifiers and divergent energy supply |
topic | Data Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8980535/ https://www.ncbi.nlm.nih.gov/pubmed/35392625 http://dx.doi.org/10.1016/j.dib.2022.108074 |
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