Coverart for item
The Resource Advancing Development of Synthetic Gene Regulators : With the Power of High-Throughput Sequencing in Chemical Biology

Advancing Development of Synthetic Gene Regulators : With the Power of High-Throughput Sequencing in Chemical Biology

Label
Advancing Development of Synthetic Gene Regulators : With the Power of High-Throughput Sequencing in Chemical Biology
Title
Advancing Development of Synthetic Gene Regulators
Title remainder
With the Power of High-Throughput Sequencing in Chemical Biology
Creator
Subject
Language
eng
Member of
Cataloging source
MiAaPQ
Literary form
non fiction
Nature of contents
dictionaries
Series statement
Springer Theses Ser
Advancing Development of Synthetic Gene Regulators : With the Power of High-Throughput Sequencing in Chemical Biology
Label
Advancing Development of Synthetic Gene Regulators : With the Power of High-Throughput Sequencing in Chemical Biology
Link
http://libproxy.rpi.edu/login?url=https://ebookcentral.proquest.com/lib/rpi/detail.action?docID=5050085
Publication
Copyright
Related Contributor
Related Location
Related Agents
Related Authorities
Related Subjects
Related Items
Carrier category
online resource
Carrier category code
cr
Carrier MARC source
rdacarrier
Color
multicolored
Content category
text
Content type code
txt
Content type MARC source
rdacontent
Contents
  • Supervisor's Foreword -- Part of this Thesis have been Published in the Following Journal Articles:Chandran A, Syed J, Li Y, Sato S, Bando T, Sugiyama H (2016) "Genome-Wide Assessment of the Binding Effects of Artificial Transcriptional Activators by High-Throughput Sequencing." Chembiochem 17:1905-1910. doi: 10.1002/cbic.201600274.Chandran A, Syed J, Taylor RD, Kashiwazaki G, Sato S, Hashiya K, Bando T, Sugiyama H (2016) "Deciphering the genomic targets of alkylating polyamide conjugates using high-throughput sequencin -- Acknowledgements -- Contents -- 1 Overview of Next-Generation Sequencing Technologies and Its Application in Chemical Biology -- Abstract -- 1.1 General Introduction: Next Generation Sequencing (NGS) Principles and Platforms -- 1.1.1 Sequencing by Synthesis (SBS) -- 1.1.1.1 Illumina -- 1.1.1.2 Roche 454 -- 1.1.1.3 Ion Torrent -- 1.1.2 Single-Molecule Sequencing (SMS) -- 1.1.2.1 Helicos -- 1.1.2.2 Pacific Biosciences (PacBio) -- 1.1.3 Sequencing by Ligation (SBL) -- 1.1.3.1 Polonator and SOLiD (Support Oligonucleotide Ligation Detection) -- 1.2 Applications of NGS in Chemical Biology -- 1.2.1 Genome-Wide Localization of Non-B DNA Using Small Molecules -- 1.2.2 Decoding of DNA Base Modification in Single Molecule Level -- 1.2.2.1 Studies Targets Epigenetically Modified Bases -- 1.2.2.2 DNA Strand Breakage and Damaged Bases -- 1.2.3 Aptamer Selection Using Massively Parallel Sequencing -- 1.3 Development of N-Methylpyrrole (P)-N-Methylimidazole (I) Polyamides (PIP) and Its Conjugates -- 1.4 PIP Based Gene Regulation -- 1.5 Utilization of NGS in PIP Based Small Molecule Studies -- 1.5.1 Guiding the Design and Screening of Small Molecule Using NGS -- 1.5.2 Analysis of Gene Expression Induced by PIP Based Small Molecules -- 1.5.2.1 Transcriptome Studies -- 1.5.2.2 Protein-DNA Interaction Studies -- 1.6 Conclusion and Future Prospects
  • References -- 2 Next Generation Sequencing Studies Guide the Design of Pyrrole-Imidazole Polyamides with Improved Binding Specificity by the Addition of Ý-Alanine -- Abstract -- 2.1 Introduction -- 2.2 Results and Discussion -- 2.2.1 PIP and PIP Conjugates Synthesis and Bind-n-Seq Analysis -- 2.2.2 PIP Redesign, ÝÝ-PIP Synthesis and Bind-n-Seq Analysis -- 2.2.3 Binding Affinity Conformation by SPR -- 2.2.4 Discussion -- 2.3 Materials and Methods -- 2.3.1 General Materials and Synthesis -- 2.3.1.1 General Scheme for Synthesis of Biotin-Conjugated Polyamides -- 2.3.2 Oligomer Sequences Used in Bind-n-Seq Method -- 2.3.3 Bind-n-Seq -- 2.3.4 Surface Plasmon Resonance (SPR) -- 2.3.4.1 General Scheme for Synthesis of Polyamides Used for SPR Analysis -- 2.3.4.2 SPR Analysis -- References -- 3 Genome-Wide Assessment of the Binding Effects of Artificial Transcriptional Activators by Utilizing the Power of High-Throughput Sequencing -- Abstract -- 3.1 Introduction -- 3.2 Results and Discussion -- 3.2.1 Revealing the Unique Gene Set Activation Mechanism of PIP Conjugates in the Human Genome -- 3.2.2 Identification of the Preferential Binding Region of PIP Conjugates in the Tightly Packed Heterochromatin Region -- 3.2.3 Discussion -- 3.3 Materials and Methods -- 3.3.1 Nucleus Extraction and PIP Conjugate Incubation -- 3.3.2 MNase Digestion -- 3.3.3 Affinity Purification -- 3.3.4 High-Throughput Sequencing Library Construction and Sequencing -- Appendix -- References -- 4 Deciphering the Genomic Targets of Alkylating Polyamide Conjugates Using High-Throughput Sequencing -- Abstract -- 4.1 Introduction -- 4.2 Results and Discussion -- 4.2.1 Bind-n-Seq with PIP-Indole-Seco-CBI Conjugate 1 -- 4.2.2 Bind-n-Seq with PIP-Indole-Seco-CBI Conjugate 2 -- 4.2.3 Bind-n-Seq with PIP-Conjugate 5
  • 4.2.4 Identification of PIP-Indole-Seco-CBI Conjugate 2 High Affinity DNA-Alkylating Site in Chromatinized Human Genome -- 4.2.5 Identification of PIP-Indole-Seco-CBI Conjugate 2 Representative Enriched Sites in Chromatinized Human Genome -- 4.2.6 Genome-Wide Analysis of PIP-Indole-Seco-CBI Conjugate 2 Enriched Sites Distribution -- 4.2.7 Discussion -- 4.3 Materials and Methods -- 4.3.1 Synthesis of Biotin-Conjugated Alkylating Polyamide Conjugates -- 4.3.2 Bind-n-Seq Experiment and High-Throughput Sequencing -- 4.3.3 Affinity Purification-Based High-Throughput Sequencing of Human Genomic Regions Enriched with PIP-Indole-Seco-CBI Conjugate 2 -- 4.3.4 Validating PIP-Indole-Seco-CBI Conjugate 2 Bound and Enriched Region in the Human Genome -- Appendix -- References -- Curriculum Vitae
http://library.link/vocab/cover_art
https://contentcafe2.btol.com/ContentCafe/Jacket.aspx?Return=1&Type=S&Value=9789811065477&userID=ebsco-test&password=ebsco-test
Dimensions
unknown
http://library.link/vocab/discovery_link
{'f': 'http://opac.lib.rpi.edu/record=b4414634'}
Extent
1 online resource (123 pages)
Form of item
online
Isbn
9789811065477
Media category
computer
Media MARC source
rdamedia
Media type code
c
Sound
unknown sound
Specific material designation
remote

Library Locations

    • Folsom LibraryBorrow it
      110 8th St, Troy, NY, 12180, US
      42.729766 -73.682577
Processing Feedback ...