2016
DOI: 10.1119/1.4941048
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Biophysical measurements of cells, microtubules, and DNA with an atomic force microscope

Abstract: Atomic force microscopes (AFMs) are ubiquitous in research laboratories and have recently been priced for use in teaching laboratories. Here we review several AFM platforms (Dimension 3000 by Digital Instruments, EasyScan2 by Nanosurf, ezAFM by Nanomagnetics, and TKAFM by Thorlabs) and describe various biophysical experiments that could be done in the teaching laboratory using these instruments. In particular, we focus on experiments that image biological materials and quantify biophysical parameters: 1) imagi… Show more

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Cited by 9 publications
(4 citation statements)
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“…In this setup, spontaneous looping is more likely to occur for DNA contour lengths, L c , that are much greater than the DNA persistence length, L p . The L p of the DNA (50 nm (40,41)) is the length over which the tangent vector to the DNA remains correlated (42) and is essentially the length that the DNA is fairly stiff and straight. If L c is much longer than L p , then the DNA can bend due to thermal fluctuations, creating a spontaneous loop.…”
Section: Resultsmentioning
confidence: 99%
“…In this setup, spontaneous looping is more likely to occur for DNA contour lengths, L c , that are much greater than the DNA persistence length, L p . The L p of the DNA (50 nm (40,41)) is the length over which the tangent vector to the DNA remains correlated (42) and is essentially the length that the DNA is fairly stiff and straight. If L c is much longer than L p , then the DNA can bend due to thermal fluctuations, creating a spontaneous loop.…”
Section: Resultsmentioning
confidence: 99%
“…We chose the longest DNA length (1023 nm) for spontaneous looping experiments because looping is more likely to occur for DNA lengths, L C (contour length or length along the DNA contour), that are much greater than the DNA persistence length, L P . The L P of the DNA (50 nm ( 37 , 38 )) is the length over which the tangent vector to the DNA remains correlated ( 39 ) and is essentially the length that the DNA is fairly stiff and straight. If L C is much longer than L P , then the DNA can bend because of thermal fluctuations, creating a spontaneous loop.…”
Section: Methodsmentioning
confidence: 99%
“…There was some DNA shrinkage due to drying in air, but most molecules (70%) were still within 20% of the expected contour length. DNA strands previously imaged with this system show heights of 0.55 ± 0.07 nm and have a lateral radius of 3.9 ± 0.6 nm, close to the expected lateral radius of 3 nm (37). We used a scan rate of either 2-4 Hz.…”
Section: Afm Data Collectionmentioning
confidence: 98%