Optical DNA mapping in nanofluidic devices: principles and applications

Super-Resolution Genome Mapping in Silicon Nanochannels

(2016) Jonathan Jeffet et al.   ACS Nano

The polymer physics of single DNA confined in nanochannels

(2016) Liang Dai et al.   ADVANCES IN COLLOID AND INTERFACE SCIENCE

Updated sesame genome assembly and fine mapping of plant height and seed coat color QTLs using a new high-density genetic map

(2016) Linhai Wang et al.   BMC GENOMICS

Analysis of single nucleic acid molecules in micro- and nano-fluidics

(2016) Sarah M. Friedrich et al.   LAB ON A CHIP

Haplotypes drop by drop

(2016) Jacob O Kitzman   NATURE BIOTECHNOLOGY

Haplotyping germline and cancer genomes with high-throughput linked-read sequencing

(2016) Grace X Y Zheng et al.   NATURE BIOTECHNOLOGY

The genome sequence of allopolyploid Brassica juncea and analysis of differential homoeolog gene expression influencing selection

(2016) Jinghua Yang et al.   NATURE GENETICS

A hybrid approach for de novo human genome sequence assembly and phasing

(2016) Yulia Mostovoy et al.   NATURE METHODS

Coming of age: ten years of next-generation sequencing technologies

(2016) Sara Goodwin et al.   NATURE REVIEWS GENETICS

Genome Mapping in Plant Comparative Genomics

(2016) Lindsay Chaney et al.   TRENDS IN PLANT SCIENCE

Genome assembly and geospatial phylogenomics of the bed bug Cimex lectularius

(2016) Jeffrey A. Rosenfeld et al.   Nature Communications

Long-read sequencing and de novo assembly of a Chinese genome

(2016) Lingling Shi et al.   Nature Communications

Rapid identification of intact bacterial resistance plasmids via optical mapping of single DNA molecules

(2016) Lena K. Nyberg et al.   Scientific Reports

Rapid Tracing of Resistance Plasmids in a Nosocomial Outbreak Using Optical DNA Mapping

(2016) Vilhelm Müller et al.   ACS Infectious Diseases

Direct identification of antibiotic resistance genes on single plasmid molecules using CRISPR/Cas9 in combination with optical DNA mapping

(2016) Vilhelm Müller et al.   Scientific Reports

Visualizing the entire DNA from a chromosome in a single frame

(2015) C. Freitag et al.   Biomicrofluidics

Measurements of DNA barcode label separations in nanochannels from time-series data

(2015) Julian Sheats et al.   Biomicrofluidics

Rapid construction of genome map for large yellow croaker (Larimichthys crocea) by the whole-genome mapping in BioNano Genomics Irys system

(2015) Shijun Xiao et al.   BMC GENOMICS

Genome-Wide Structural Variation Detection by Genome Mapping on Nanochannel Arrays

(2015) A. C. Y. Mak et al.   GENETICS

Optical mapping of single-molecule human DNA in disposable, mass-produced all-polymer devices

(2015) Peter Friis Østergaard et al.   JOURNAL OF MICROMECHANICS AND MICROENGINEERING

Single-molecule sequencing of the desiccation-tolerant grass Oropetium thomaeum

(2015) Robert VanBuren et al.   NATURE

Structural forms of the human amylase locus and their relationships to SNPs, haplotypes and obesity

(2015) Christina L Usher et al.   NATURE GENETICS

Assembly and diploid architecture of an individual human genome via single-molecule technologies

(2015) Matthew Pendleton et al.   NATURE METHODS

Genetic variation and the de novo assembly of human genomes

(2015) Mark J. P. Chaisson et al.   NATURE REVIEWS GENETICS

CRISPR-CAS9 D10A nickase target-specific fluorescent labeling of double strand DNA for whole genome mapping and structural variation analysis

(2015) Jennifer McCaffrey et al.   NUCLEIC ACIDS RESEARCH

Bacteriophage strain typing by rapid single molecule analysis

(2015) Assaf Grunwald et al.   NUCLEIC ACIDS RESEARCH

Rapid detection of structural variation in a human genome using nanochannel-based genome mapping technology

(2015) Hongzhi Cao et al.   GigaScience

Imaging and Sizing of Single DNA Molecules on a Mobile Phone

(2014) Qingshan Wei et al.   ACS Nano

Spectroscopic Quantification of 5-Hydroxymethylcytosine in Genomic DNA

(2014) Tamar Shahal et al.   ANALYTICAL CHEMISTRY

Lighting Up Individual DNA Damage Sites by In Vitro Repair Synthesis

(2014) Shahar Zirkin et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Competitive binding-based optical DNA mapping for fast identification of bacteria - multi-ligand transfer matrix theory and experimental applications on Escherichia coli

(2014) Adam N. Nilsson et al.   NUCLEIC ACIDS RESEARCH

Toward Single-Molecule Optical Mapping of the Epigenome

(2013) Michal Levy-Sakin et al.   ACS Nano

Chromatin modification mapping in nanochannels

(2013) Shuang Fang Lim et al.   Biomicrofluidics

Optical detection of epigenetic marks: sensitive quantification and direct imaging of individual hydroxymethylcytosine bases

(2013) Yael Michaeli et al.   CHEMICAL COMMUNICATIONS

Beyond sequencing: optical mapping of DNA in the age of nanotechnology and nanoscopy

(2013) Michal Levy-Sakin et al.   CURRENT OPINION IN BIOTECHNOLOGY

Rapid Genome Mapping in Nanochannel Arrays for Highly Complete and Accurate De Novo Sequence Assembly of the Complex Aegilops tauschii Genome

(2013) Alex R. Hastie et al.   PLoS One

Integrated view of genome structure and sequence of a single DNA molecule in a nanofluidic device

(2013) R. Marie et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

DNA barcoding via counterstaining with AT/GC sensitive ligands in injection-molded all-polymer nanochannel devices

(2012) Peter Friis Østergaard et al.   ANALYST

Nanofluidic devices towards single DNA molecule sequence mapping

(2012) Rodolphe Marie et al.   Journal of Biophotonics

Denaturation mapping of Saccharomyces cerevisiae

(2012) Robert L. Welch et al.   LAB ON A CHIP

Genome mapping on nanochannel arrays for structural variation analysis and sequence assembly

(2012) Ernest T Lam et al.   NATURE BIOTECHNOLOGY

DNA confinement in nanochannels: physics and biological applications

(2012) Walter Reisner et al.   REPORTS ON PROGRESS IN PHYSICS

A Programmable Dual-RNA-Guided DNA Endonuclease in Adaptive Bacterial Immunity

(2012) M. Jinek et al.   SCIENCE

A single-step competitive binding assay for mapping of single DNA molecules

(2011) Lena K. Nyberg et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

DNA methylation profiling in nanochannels

(2011) Shuang Fang Lim et al.   Biomicrofluidics

Optical mapping of DNA: Single-molecule-based methods for mapping genomes

(2011) Robert K. Neely et al.   BIOPOLYMERS

DNA manipulation, sorting, and mapping in nanofluidic systems

(2010) Stephen L. Levy et al.   CHEMICAL SOCIETY REVIEWS

DNA in nanochannels—directly visualizing genomic information

(2010) Fredrik Persson et al.   CHEMICAL SOCIETY REVIEWS

Fluorescence enhancement of single DNA molecules confined in Si/SiO2 nanochannels

(2010) Fredrik Westerlund et al.   LAB ON A CHIP

Selective chemical labeling reveals the genome-wide distribution of 5-hydroxymethylcytosine

(2010) Chun-Xiao Song et al.   NATURE BIOTECHNOLOGY

Limitations of next-generation genome sequence assembly

(2010) Can Alkan et al.   NATURE METHODS

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

(2010) S. K. Das et al.   NUCLEIC ACIDS RESEARCH

Single-molecule denaturation mapping of DNA in nanofluidic channels

(2010) W. Reisner et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Confinement Spectroscopy: Probing Single DNA Molecules with Tapered Nanochannels

(2009) Fredrik Persson et al.   NANO LETTERS

Real-Time DNA Sequencing from Single Polymerase Molecules

(2008) J. Eid et al.   SCIENCE