Genome-wide mapping of epigenetic modifications in DNA /
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| Author / Creator: | Yu, Miao, author. |
|---|---|
| Imprint: | 2015. Ann Arbor : ProQuest Dissertations & Theses, 2015 |
| Description: | 1 electronic resource (134 pages) |
| Language: | English |
| Format: | E-Resource Dissertations |
| Local Note: | School code: 0330 |
| URL for this record: | http://pi.lib.uchicago.edu/1001/cat/bib/10773310 |
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| 100 | 1 | |a Yu, Miao, |e author. |0 http://id.loc.gov/authorities/names/nb2010009186 |1 http://viaf.org/viaf/317147993 | |
| 245 | 1 | 0 | |a Genome-wide mapping of epigenetic modifications in DNA / |c Yu, Miao. |
| 260 | |c 2015. | ||
| 264 | 1 | |a Ann Arbor : |b ProQuest Dissertations & Theses, |c 2015 | |
| 300 | |a 1 electronic resource (134 pages) | ||
| 336 | |a text |b txt |2 rdacontent |0 http://id.loc.gov/vocabulary/contentTypes/txt | ||
| 337 | |a computer |b c |2 rdamedia |0 http://id.loc.gov/vocabulary/mediaTypes/c | ||
| 338 | |a online resource |b cr |2 rdacarrier |0 http://id.loc.gov/vocabulary/carriers/cr | ||
| 500 | |a Advisors: Chuan He Committee members: Bryan C. Dickinson; Lucy A. Godley. | ||
| 502 | |b Ph.D. |c The University of Chicago, Division of the Physical Sciences, Department of Chemistry |d 2015. | ||
| 510 | 4 | |a Dissertation Abstracts International, |c Volume: 77-02(E), Section: B. | |
| 520 | |a DNA modifications are among the major components in epigenetic regulation of gene expression in both eukaryote and prokaryote. 5-methylcytosine (5mC) and its oxidative derivatives, 5-hydroxymethylcytosine (5hmC), 5-formylcytosine (5fC) and 5-carboxylcytosine (5caC) are present in mammalian genomes while in bacterial genomes N6-methyladenosine (6mA), 5mC and N4-methylcytosine (4mC) are the common DNA modifications. We have been working on the development of high-throughput sequencing methods to locate these DNA modifications in a genome-wide manner and reveal their biological functions. We have developed 1) Tet-assisted bisulfite sequencing (TAB-Seq), a genome-wide approach to map 5hmC at single-base resolution and quantifying the relative abundance of 5hmC. Application of TAB-seq to embryonic stem cells not only confirms widespread distribution of 5hmC in the mammalian genome but also reveals sequence bias and strand asymmetry at 5hmC sites. 2) 4mC-Tet-Assisted Bisulfite-sequencing (4mC-TAB-seq), a next-generation sequencing-coupled method that rapidly and cost efficiently reveals the genome-wide locations of 4mC for bacterial species with an available assembled reference genome. 3) a selective labeling method to map mismatched 5-hydroxymethyluracil (5hmU), which is a key intermediate in one of the proposed active demethylation pathways in mammalian cells. | ||
| 546 | |a English | ||
| 590 | |a School code: 0330 | ||
| 690 | |a Biochemistry. | ||
| 690 | |a Bioinformatics. | ||
| 690 | |a Molecular biology. | ||
| 710 | 2 | |a University of Chicago. |e degree granting institution. |0 http://id.loc.gov/authorities/names/n79058404 |1 http://viaf.org/viaf/143657677 | |
| 720 | 1 | |a Chuan He |e degree supervisor. | |
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