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Beyond Enhancer-Promoter Contact: Le...
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Rajpurkar, Aparna Rajiv.
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Beyond Enhancer-Promoter Contact: Leveraging Deep Learning to Connect Super-Resolution DNA Traces to Transcription.
紀錄類型:
書目-電子資源 : Monograph/item
正題名/作者:
Beyond Enhancer-Promoter Contact: Leveraging Deep Learning to Connect Super-Resolution DNA Traces to Transcription./
作者:
Rajpurkar, Aparna Rajiv.
出版者:
Ann Arbor : ProQuest Dissertations & Theses, : 2021,
面頁冊數:
127 p.
附註:
Source: Dissertations Abstracts International, Volume: 82-08, Section: B.
Contained By:
Dissertations Abstracts International82-08B.
標題:
Genetics. -
電子資源:
https://pqdd.sinica.edu.tw/twdaoapp/servlet/advanced?query=28392140
ISBN:
9798569985166
Beyond Enhancer-Promoter Contact: Leveraging Deep Learning to Connect Super-Resolution DNA Traces to Transcription.
Rajpurkar, Aparna Rajiv.
Beyond Enhancer-Promoter Contact: Leveraging Deep Learning to Connect Super-Resolution DNA Traces to Transcription.
- Ann Arbor : ProQuest Dissertations & Theses, 2021 - 127 p.
Source: Dissertations Abstracts International, Volume: 82-08, Section: B.
Thesis (Ph.D.)--Stanford University, 2021.
This item must not be sold to any third party vendors.
Chromatin architecture plays an important role in gene regulation. Recent advances in super-resolution microscopy have made it possible to measure chromatin 3D structure and transcription in thousands of single cells. However, leveraging these complex datasets with a computationally unbiased method has not been achieved. In this dissertation, I present a deep learning-based approach to better understand to what degree chromatin structure relates to the transcriptional state of individual cells. Furthermore, I explore methods to "unpack the black box" to determine in an unbiased manner which structural features of chromatin regulation are most important for gene expression state. I apply this approach to the Optical Reconstruction of Chromatin Architecture dataset of the Bithorax gene cluster in Drosophila and show it significantly outperforms previous contact-focused methods. This work finds the structural information is distributed across the domain, overlapping and extending beyond domains identified by prior genetic analyses. Individual enhancer-promoter interactions are a minor contributor to predictions of activity.
ISBN: 9798569985166Subjects--Topical Terms:
530508
Genetics.
Subjects--Index Terms:
Chromatin architecture
Beyond Enhancer-Promoter Contact: Leveraging Deep Learning to Connect Super-Resolution DNA Traces to Transcription.
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Chromatin architecture plays an important role in gene regulation. Recent advances in super-resolution microscopy have made it possible to measure chromatin 3D structure and transcription in thousands of single cells. However, leveraging these complex datasets with a computationally unbiased method has not been achieved. In this dissertation, I present a deep learning-based approach to better understand to what degree chromatin structure relates to the transcriptional state of individual cells. Furthermore, I explore methods to "unpack the black box" to determine in an unbiased manner which structural features of chromatin regulation are most important for gene expression state. I apply this approach to the Optical Reconstruction of Chromatin Architecture dataset of the Bithorax gene cluster in Drosophila and show it significantly outperforms previous contact-focused methods. This work finds the structural information is distributed across the domain, overlapping and extending beyond domains identified by prior genetic analyses. Individual enhancer-promoter interactions are a minor contributor to predictions of activity.
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