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Literature DB >> 22344826

Enzymatically incorporated genomic tags for optical mapping of DNA-binding proteins.

Soohong Kim¹, Anna Gottfried, Ron R Lin, Thomas Dertinger, Andrew S Kim, Sangyoon Chung, Ryan A Colyer, Elmar Weinhold, Shimon Weiss, Yuval Ebenstein.

Abstract

Entities: Chemical Disease Species

Mesh：

Substances：
DNA-Binding Proteins
DNA

Year: 2012 PMID： 22344826 PMCID： PMC3417104 DOI： 10.1002/anie.201107714

Source DB: PubMed Journal: Angew Chem Int Ed Engl ISSN： 1433-7851 Impact factor: 15.336

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20 in total

1. Peptide nucleic acids as tools for single-molecule sequence detection and manipulation.

Authors: Hagar Zohar; Craig L Hetherington; Carlos Bustamante; Susan J Muller
Journal: Nano Lett Date: 2010-11-10 Impact factor: 11.189

2. Dynamic molecular combing: stretching the whole human genome for high-resolution studies.

Authors: X Michalet; R Ekong; F Fougerousse; S Rousseaux; C Schurra; N Hornigold; M van Slegtenhorst; J Wolfe; S Povey; J S Beckmann; A Bensimon
Journal: Science Date: 1997-09-05 Impact factor: 47.728

3. DNA mapping using microfluidic stretching and single-molecule detection of fluorescent site-specific tags.

Authors: Eugene Y Chan; Nuno M Goncalves; Rebecca A Haeusler; Amie J Hatch; Jonathan W Larson; Anthony M Maletta; Gregory R Yantz; Eugene D Carstea; Martin Fuchs; Gordon G Wong; Steven R Gullans; Rudolf Gilmanshin
Journal: Genome Res Date: 2004-06 Impact factor: 9.043

4. Sequence-specific methyltransferase-induced labeling of DNA (SMILing DNA).

Authors: Goran Pljevaljcić; Falk Schmidt; Elmar Weinhold
Journal: Chembiochem Date: 2004-03-05 Impact factor: 3.164

5. Scoring-and-unfolding trimmed tree assembler: concepts, constructs and comparisons.

Authors: Giuseppe Narzisi; Bud Mishra
Journal: Bioinformatics Date: 2010-11-18 Impact factor: 6.937

Review 6. Optical mapping of DNA: single-molecule-based methods for mapping genomes.

Authors: Robert K Neely; Jochem Deen; Johan Hofkens
Journal: Biopolymers Date: 2011-01-04 Impact factor: 2.505

Review 7. Labeling DNA for single-molecule experiments: methods of labeling internal specific sequences on double-stranded DNA.

Authors: Hagar Zohar; Susan J Muller
Journal: Nanoscale Date: 2011-07-06 Impact factor: 7.790

8. Optical mapping of lambda bacteriophage clones using restriction endonucleases.

Authors: X Meng; K Benson; K Chada; E J Huff; D C Schwartz
Journal: Nat Genet Date: 1995-04 Impact factor: 38.330

9. Single molecule linear analysis of DNA in nano-channel labeled with sequence specific fluorescent probes.

Authors: Somes K Das; Michael D Austin; Matthew C Akana; Paru Deshpande; Han Cao; Ming Xiao
Journal: Nucleic Acids Res Date: 2010-08-10 Impact factor: 16.971

10. Comparing de novo genome assembly: the long and short of it.

Authors: Giuseppe Narzisi; Bud Mishra
Journal: PLoS One Date: 2011-04-29 Impact factor: 3.240

15 in total

1. Channeling DNA for optical mapping.

Authors: Yael Michaeli; Yuval Ebenstein
Journal: Nat Biotechnol Date: 2012-08 Impact factor: 54.908

2. DNA combing on low-pressure oxygen plasma modified polysilsesquioxane substrates for single-molecule studies.

Authors: K K Sriram; Chun-Ling Chang; U Rajesh Kumar; Chia-Fu Chou
Journal: Biomicrofluidics Date: 2014-08-06 Impact factor: 2.800

3. Toward single-molecule optical mapping of the epigenome.

Authors: Michal Levy-Sakin; Assaf Grunwald; Soohong Kim; Natalie R Gassman; Anna Gottfried; Josh Antelman; Younggyu Kim; Sam O Ho; Robin Samuel; Xavier Michalet; Ron R Lin; Thomas Dertinger; Andrew S Kim; Sangyoon Chung; Ryan A Colyer; Elmar Weinhold; Shimon Weiss; Yuval Ebenstein
Journal: ACS Nano Date: 2013-12-20 Impact factor: 15.881

Enzymatically incorporated genomic tags for optical mapping of DNA-binding proteins.

1. Peptide nucleic acids as tools for single-molecule sequence detection and manipulation.

2. Dynamic molecular combing: stretching the whole human genome for high-resolution studies.

3. DNA mapping using microfluidic stretching and single-molecule detection of fluorescent site-specific tags.

4. Sequence-specific methyltransferase-induced labeling of DNA (SMILing DNA).

5. Scoring-and-unfolding trimmed tree assembler: concepts, constructs and comparisons.

Review 6. Optical mapping of DNA: single-molecule-based methods for mapping genomes.

Review 7. Labeling DNA for single-molecule experiments: methods of labeling internal specific sequences on double-stranded DNA.

8. Optical mapping of lambda bacteriophage clones using restriction endonucleases.

9. Single molecule linear analysis of DNA in nano-channel labeled with sequence specific fluorescent probes.

10. Comparing de novo genome assembly: the long and short of it.

1. Channeling DNA for optical mapping.

2. DNA combing on low-pressure oxygen plasma modified polysilsesquioxane substrates for single-molecule studies.

3. Toward single-molecule optical mapping of the epigenome.

4. Sequence-specific labeling of nucleic acids and proteins with methyltransferases and cofactor analogues.

5. Nucleoside-modified AdoMet analogues for differential methyltransferase targeting.

Review 6. Harnessing methylation and AdoMet-utilising enzymes for selective modification in cascade reactions.

7. Bacteriophage strain typing by rapid single molecule analysis.

8. Super-resolution optical DNA Mapping via DNA methyltransferase-directed click chemistry.

9. Direct optical mapping of transcription factor binding sites on field-stretched λ-DNA in nanofluidic devices.

10. Engineering the DNA cytosine-5 methyltransferase reaction for sequence-specific labeling of DNA.