scholarly journals Length-independent DNA packing into nanopore zero-mode waveguides for low-input DNA sequencing

2017 ◽  
Vol 12 (12) ◽  
pp. 1169-1175 ◽  
Author(s):  
Joseph Larkin ◽  
Robert Y. Henley ◽  
Vivek Jadhav ◽  
Jonas Korlach ◽  
Meni Wanunu
Keyword(s):  
Dna Sequencing ◽  
Zero Mode ◽  
Low Input ◽  
Dna Packing

scholarly journals Nanopore Zero-Mode Waveguides for DNA Sequencing and Beyond

2016 ◽  
Vol 110 (3) ◽  
pp. 530a
Author(s):  
Joseph Larkin ◽  
Robert Y. Henley ◽  
Jonas Korlach ◽  
Meni Wanunu
Keyword(s):  
Dna Sequencing ◽  
Zero Mode

scholarly journals Porous Zero-Mode Waveguides for Picogram-Level DNA Sequencing

2019 ◽  
Vol 116 (3) ◽  
pp. 32a
Author(s):  
Vivek S. Jadhav ◽  
David P. Hoogerheide ◽  
Jonas Korlach ◽  
Meni Wanunu
Keyword(s):  
Dna Sequencing ◽  
Zero Mode

scholarly journals CUTseq is a versatile method for preparing multiplexed DNA sequencing libraries from low-input samples

2019 ◽  
Author(s):  
Xiaolu Zhang ◽  
Silvano Garnerone ◽  
Michele Simonetti ◽  
Luuk Harbers ◽  
Marcin Nicoś ◽  
...  
Keyword(s):  
Dna Sequencing ◽  
Genomic Dna ◽  
Massively Parallel Sequencing ◽  
Cost Effective ◽  
Restriction Enzymes ◽  
In Vitro Transcription ◽  
Intratumor Heterogeneity ◽  
Library Preparation ◽  
Low Input

Abstract Current multiplexing strategies for massively parallel sequencing of genomic DNA mainly rely on library indexing in the final steps of library preparation. This procedure is costly and time-consuming because a single library must be produced separately for each sample. Furthermore, library preparation is challenging in the case of low-input fixed samples, such as DNA extracted from formalin-fixed paraffin-embedded (FFPE) tissues. Here, we describe CUTseq, a method that uses restriction enzymes and in vitro transcription to barcode and amplify genomic DNA prior to library construction. We thoroughly validate CUTseq and demonstrate its applicability to both genome and exome sequencing, enabling multi-region genome profiling within single stained FFPE tissue sections, to assess intratumor heterogeneity at high spatial resolution. In conclusion, CUTseq is a versatile and cost-effective method for multiplexed DNA sequencing library preparation that can find numerous applications in research and diagnostics.

Reliable detection of somatic mutations in solid tissues by laser-capture microdissection and low-input DNA sequencing

2020 ◽  
Author(s):  
Peter Ellis ◽  
Luiza Moore ◽  
Mathijs A. Sanders ◽  
Timothy M. Butler ◽  
Simon F. Brunner ◽  
...  
Keyword(s):  
Dna Sequencing ◽  
Laser Capture Microdissection ◽  
Somatic Mutations ◽  
Low Input ◽  
Reliable Detection ◽  
Solid Tissues ◽  
Laser Capture

scholarly journals CUTseq is a versatile method for preparing multiplexed DNA sequencing libraries from low-input samples

2019 ◽  
Author(s):  
Xiaolu Zhang ◽  
Silvano Garnerone ◽  
Michele Simonetti ◽  
Luuk Harbers ◽  
Marcin Nicoś ◽  
...  
Keyword(s):  
Dna Sequencing ◽  
Genomic Dna ◽  
Massively Parallel Sequencing ◽  
Cost Effective ◽  
Restriction Enzymes ◽  
In Vitro Transcription ◽  
Intratumor Heterogeneity ◽  
Library Preparation ◽  
Low Input

Abstract Current multiplexing strategies for massively parallel sequencing of genomic DNA mainly rely on library indexing in the final steps of library preparation. This procedure is costly and time-consuming because a single library must be produced separately for each sample. Furthermore, library preparation is challenging in the case of low-input fixed samples, such as DNA extracted from formalin-fixed paraffin-embedded (FFPE) tissues. Here, we describe CUTseq, a method that uses restriction enzymes and in vitro transcription to barcode and amplify genomic DNA prior to library construction. We thoroughly validate CUTseq and demonstrate its applicability to both genome and exome sequencing, enabling multi-region genome profiling within single stained FFPE tissue sections, to assess intratumor heterogeneity at high spatial resolution. In conclusion, CUTseq is a versatile and cost-effective method for multiplexed DNA sequencing library preparation that can find numerous applications in research and diagnostics.

scholarly journals CUTseq is a versatile method for preparing multiplexed DNA sequencing libraries from low-input samples

2019 ◽  
Author(s):  
Xiaolu Zhang ◽  
Silvano Garnerone ◽  
Michele Simonetti ◽  
Marcin Nicoś ◽  
Luuk Harbers ◽  
...  
Keyword(s):  
Dna Sequencing ◽  
Genomic Dna ◽  
Massively Parallel Sequencing ◽  
Cost Effective ◽  
Restriction Enzymes ◽  
In Vitro Transcription ◽  
Intratumor Heterogeneity ◽  
Library Preparation ◽  
Low Input

Abstract Current multiplexing strategies for massively parallel sequencing of genomic DNA mainly rely on library indexing in the final steps of library preparation. This procedure is costly and time-consuming because a single library must be produced separately for each sample. Furthermore, library preparation is challenging in the case of low-input fixed samples, such as DNA extracted from formalin-fixed paraffin-embedded (FFPE) tissues. Here, we describe CUTseq, a method that uses restriction enzymes and in vitro transcription to barcode and amplify genomic DNA prior to library construction. We thoroughly validate CUTseq and demonstrate its applicability to both genome and exome sequencing, enabling multi-region genome profiling within single stained FFPE tissue sections, to assess intratumor heterogeneity at high spatial resolution. In conclusion, CUTseq is a versatile and cost-effective method for multiplexed DNA sequencing library preparation that can find numerous applications in research and diagnostics.

Imaging polymers, proteins and dna in aqueous solutions with the atomic force microscope

1989 ◽  
Vol 47 ◽  
pp. 32-33
Author(s):  
S.A.C. Gould ◽  
B. Drake ◽  
C.B. Prater ◽  
A.L. Weisenhorn ◽  
S.M. Lindsay ◽  
...  
Keyword(s):  
Amino Acids ◽  
Dna Sequencing ◽  
Aqueous Solutions ◽  
Atomic Force Microscope ◽  
Piezoelectric Crystal ◽  
Atomic Force ◽  
Structure Of Molecules ◽  
Optical Lever

The atomic force microscope (AFM) is an instrument that can be used to image many samples of interest in biology and medicine. Images of polymerized amino acids, polyalanine and polyphenylalanine demonstrate the potential of the AFM for revealing the structure of molecules. Images of the protein fibrinogen which agree with TEM images demonstrate that the AFM can provide topographical data on larger molecules. Finally, images of DNA suggest the AFM may soon provide an easier and faster technique for DNA sequencing.The AFM consists of a microfabricated SiO2 triangular shaped cantilever with a diamond tip affixed at the elbow to act as a probe. The sample is mounted on a electronically driven piezoelectric crystal. It is then placed in contact with the tip and scanned. The topography of the surface causes minute deflections in the 100 μm long cantilever which are detected using an optical lever.

TB OR NOT TB?… THAT IS THE QUESTION: A RARE MYCOBACTERIUM (M. INTERMEDIUM) IDENTIFIED BY DNA SEQUENCING

2001 ◽  
Vol 28 (10) ◽  
pp. 549-554
Author(s):  
Ryan N. Cole ◽  
Stewart W. West ◽  
Christine L. Terrell ◽  
Glenn D. Roberts ◽  
Iftikhar Ahmed
Keyword(s):  
Dna Sequencing
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