Understand Biology Using Single Cell RNA-Sequencing

Understand Biology Using Single Cell RNA-Sequencing

This dissertation summarizes the development of experimental and analytical tools for single cell RNA sequencing (scRNA-Seq), including 1) scPLATE-Seq, a FACS- and plate-based scRNASeq platform, which is accurate, robust, fully automated and cost-efficient; 2) metaVIPER, an algorithm for transcripti...

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Bibliographic Details
Main Author: Ding, Hongxu
Language:English
Published: 2018
Subjects:
Biology
Nucleotide sequence
Systems biology
Online Access:https://doi.org/10.7916/D8Z04S0R
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spelling ndltd-columbia.edu-oai-academiccommons.columbia.edu-10.7916-D8Z04S0R2019-05-09T15:16:00ZUnderstand Biology Using Single Cell RNA-SequencingDing, Hongxu2018ThesesBiologyNucleotide sequenceSystems biologyThis dissertation summarizes the development of experimental and analytical tools for single cell RNA sequencing (scRNA-Seq), including 1) scPLATE-Seq, a FACS- and plate-based scRNASeq platform, which is accurate, robust, fully automated and cost-efficient; 2) metaVIPER, an algorithm for transcriptional regulator activity inference based on scRNA-Seq profiles; and 3) iterClust, a statistical framework for iterative clustering analysis, especially suitable for dissecting hierarchy of heterogeneity among single cells. Further this dissertation summarizes biological questions answered by combining these tools, including 1) understanding inter- and intra-tumor heterogeneity of human glioblastoma; 2) elucidating regulators of β-cell de-differentiation in type-2 diabetes; and 3) developing novel therapeutics targeting cell-state regulators of breast cancer stem cells.Englishhttps://doi.org/10.7916/D8Z04S0R
collection NDLTD
language English
sources NDLTD
topic Biology
Nucleotide sequence
Systems biology
spellingShingle Biology
Nucleotide sequence
Systems biology
Ding, Hongxu
Understand Biology Using Single Cell RNA-Sequencing
description This dissertation summarizes the development of experimental and analytical tools for single cell RNA sequencing (scRNA-Seq), including 1) scPLATE-Seq, a FACS- and plate-based scRNASeq platform, which is accurate, robust, fully automated and cost-efficient; 2) metaVIPER, an algorithm for transcriptional regulator activity inference based on scRNA-Seq profiles; and 3) iterClust, a statistical framework for iterative clustering analysis, especially suitable for dissecting hierarchy of heterogeneity among single cells. Further this dissertation summarizes biological questions answered by combining these tools, including 1) understanding inter- and intra-tumor heterogeneity of human glioblastoma; 2) elucidating regulators of β-cell de-differentiation in type-2 diabetes; and 3) developing novel therapeutics targeting cell-state regulators of breast cancer stem cells.
author Ding, Hongxu
author_facet Ding, Hongxu
author_sort Ding, Hongxu
title Understand Biology Using Single Cell RNA-Sequencing
title_short Understand Biology Using Single Cell RNA-Sequencing
title_full Understand Biology Using Single Cell RNA-Sequencing
title_fullStr Understand Biology Using Single Cell RNA-Sequencing
title_full_unstemmed Understand Biology Using Single Cell RNA-Sequencing
title_sort understand biology using single cell rna-sequencing
publishDate 2018
url https://doi.org/10.7916/D8Z04S0R
work_keys_str_mv AT dinghongxu understandbiologyusingsinglecellrnasequencing
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