Multicolor super-resolution DNA imaging for genetic analysis

Murat Baday; Aaron Cravens; Alex Hastie; Hyeongjun Kim; Deren E. Kudeki; Pui Yan Kwok; Ming Xiao; Paul R. Selvin

doi:10.1021/nl302069q

Multicolor super-resolution DNA imaging for genetic analysis

Murat Baday, Aaron Cravens, Alex Hastie, Hyeongjun Kim, Deren E. Kudeki, Pui Yan Kwok, Ming Xiao, Paul R. Selvin

Research output: Contribution to journal › Article › peer-review

Abstract

Many types of cancer and neurodegenerative diseases are caused by abnormalities and variations in the genome. We have designed a high-resolution imaging technique with high throughput and low cost for determining structural variations of genes related to genetic diseases. We initially mapped all seven nicking sites of Nb.BbvCI endonuclease enzyme on lambda DNA. Then we resolved densely labeled patterns of 107 nicking sites on human BAC DNA that is digested by Nb.BsmI and Nb.BbvCI endonuclease enzymes. This high density resulted in several dyes being closer together than the diffraction limit. Overall, detailed DNA nicking sites mapping with 100bp resolution was achieved, which has the potential to reveal information about genetic variance and to facilitate medical diagnosis of several genetic diseases.

Original language	English (US)
Pages (from-to)	3861-3866
Number of pages	6
Journal	Nano letters
Volume	12
Issue number	7
DOIs	https://doi.org/10.1021/nl302069q
State	Published - Jul 11 2012

Keywords

SHREC, DNA
SHRImP
Super-resolution
copy-number variations
genomic variations
optical DNA mapping

ASJC Scopus subject areas

Bioengineering
General Chemistry
General Materials Science
Condensed Matter Physics
Mechanical Engineering

Online availability

10.1021/nl302069q

Library availability

Discover UIUC Full Text

Cite this

@article{713565f2ef8646228ac10d2406085131,

title = "Multicolor super-resolution DNA imaging for genetic analysis",

abstract = "Many types of cancer and neurodegenerative diseases are caused by abnormalities and variations in the genome. We have designed a high-resolution imaging technique with high throughput and low cost for determining structural variations of genes related to genetic diseases. We initially mapped all seven nicking sites of Nb.BbvCI endonuclease enzyme on lambda DNA. Then we resolved densely labeled patterns of 107 nicking sites on human BAC DNA that is digested by Nb.BsmI and Nb.BbvCI endonuclease enzymes. This high density resulted in several dyes being closer together than the diffraction limit. Overall, detailed DNA nicking sites mapping with 100bp resolution was achieved, which has the potential to reveal information about genetic variance and to facilitate medical diagnosis of several genetic diseases.",

keywords = "SHREC, DNA, SHRImP, Super-resolution, copy-number variations, genomic variations, optical DNA mapping",

author = "Murat Baday and Aaron Cravens and Alex Hastie and Hyeongjun Kim and Kudeki, {Deren E.} and Kwok, {Pui Yan} and Ming Xiao and Selvin, {Paul R.}",

year = "2012",

month = jul,

day = "11",

doi = "10.1021/nl302069q",

language = "English (US)",

volume = "12",

pages = "3861--3866",

journal = "Nano letters",

issn = "1530-6984",

publisher = "American Chemical Society",

number = "7",

}

TY - JOUR

T1 - Multicolor super-resolution DNA imaging for genetic analysis

AU - Baday, Murat

AU - Cravens, Aaron

AU - Hastie, Alex

AU - Kim, Hyeongjun

AU - Kudeki, Deren E.

AU - Kwok, Pui Yan

AU - Xiao, Ming

AU - Selvin, Paul R.

PY - 2012/7/11

Y1 - 2012/7/11

N2 - Many types of cancer and neurodegenerative diseases are caused by abnormalities and variations in the genome. We have designed a high-resolution imaging technique with high throughput and low cost for determining structural variations of genes related to genetic diseases. We initially mapped all seven nicking sites of Nb.BbvCI endonuclease enzyme on lambda DNA. Then we resolved densely labeled patterns of 107 nicking sites on human BAC DNA that is digested by Nb.BsmI and Nb.BbvCI endonuclease enzymes. This high density resulted in several dyes being closer together than the diffraction limit. Overall, detailed DNA nicking sites mapping with 100bp resolution was achieved, which has the potential to reveal information about genetic variance and to facilitate medical diagnosis of several genetic diseases.

AB - Many types of cancer and neurodegenerative diseases are caused by abnormalities and variations in the genome. We have designed a high-resolution imaging technique with high throughput and low cost for determining structural variations of genes related to genetic diseases. We initially mapped all seven nicking sites of Nb.BbvCI endonuclease enzyme on lambda DNA. Then we resolved densely labeled patterns of 107 nicking sites on human BAC DNA that is digested by Nb.BsmI and Nb.BbvCI endonuclease enzymes. This high density resulted in several dyes being closer together than the diffraction limit. Overall, detailed DNA nicking sites mapping with 100bp resolution was achieved, which has the potential to reveal information about genetic variance and to facilitate medical diagnosis of several genetic diseases.

KW - SHREC, DNA

KW - SHRImP

KW - Super-resolution

KW - copy-number variations

KW - genomic variations

KW - optical DNA mapping

UR - http://www.scopus.com/inward/record.url?scp=84863847010&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=84863847010&partnerID=8YFLogxK

U2 - 10.1021/nl302069q

DO - 10.1021/nl302069q

M3 - Article

C2 - 22698062

AN - SCOPUS:84863847010

SN - 1530-6984

VL - 12

SP - 3861

EP - 3866

JO - Nano letters

JF - Nano letters

IS - 7

ER -

Multicolor super-resolution DNA imaging for genetic analysis

Abstract

Keywords

ASJC Scopus subject areas

Online availability

Library availability

Related links

Fingerprint

Cite this