The NanoDrop ND-1000 Spectrophotometer measures the absorbance of the fluorescent dye, allowing detection at dye concentrations as low as 0.2 picomole per microliter. Fluorescent Dye Selection There are currently nine fluorescent dyes that are hard-coded.
Nanodrop Nd-1000 Software The NanoDrop 1000 software will archive the results will in the NanoDrop data folder at: C:NanoDrop DataCalib check. If using the NanoDrop 1000 calibration check specific software downloaded from our website, the results are not automati-cally archived and must be manually saved to retain a record.
Q: Does the NanoDrop 1000 require a computer to operate? A: Yes, the NanoDrop 1000 connects to a computer with a USB cable. The cable, operating software and a one year warranty are sup-plied with each instrument. Q: What are the computer requirements for the NanoDrop 1000? A: Visit our website for more information.

NanoDrop ND-1000 spectrophotometer

Websites

General FAQ http://nanodrop.com/library/ND%201000%20FAQ.pdf
User Manual http://nanodrop.com/Support.aspx?Type=User%20Guides&Cat=NanoDrop%201000
Reproducibility Performance Data http://www.nanodrop.com/library/NanoDrop%201000-Reproducibility-Performance-Data.pdf
Linearity Performance Data http://www.nanodrop.com/library/NanoDrop%201000-linearity-Performance-Data.pdf
Homogeneity Performance Data http://www.nanodrop.com/library/NanoDrop%201000-Homogeneity-Performance-Data.pdf
NanoDrop Website http://www.nanodrop.com

For those who seek to install their NanoDrop 1000 under Windows 10, I have a solution for you: First, retrieve the installation file (ND10003.8.1.exe) from the ThermoFisher website.

Procedure

Typical DNA peak as measured by the Nanodrop on PC

Before starting the software module, clean the sample surfaces with DI water to remove any dried sample that might be present.
- Alternatively, you can clean the sample surfaces with a Kimwipe moistened with 70% ethanol.
Open the Nanodrop program and the appropriate module (e.g., DNA).
Wipe off the top and bottom sensors of the instrument with a Kimwipe. These are just the polished ends of fiber optic cable, so wiping is sufficient to prevent carryover.
Pipette 2 μL of DD water (stored in a blue microtube) onto the sensor. Bring down the lever arm.
Follow the onscreen prompts to calibrate.
Wipe the sensors and pipette on 2 μL of the corresponding blank (Buffer EB or whatever solution your prep is in). Bring down the lever arm.
Follow the onscreen prompts to blank.
Wipe the sensors and pipette on 2 μL of your sample. Bring down the lever arm.
Click Measure and record the concentration measured.
For DNA, the peak should be at 260 nm, and as a general rule, the 260/280 ratio should be between 1.8 and 2.0.
To test multiple samples, just wipe the sensor in between measurements with a Kimwipe. Recalibration or re-blanking is not necessary.
Clean the sample surfaces once more after you are finished.

Notes

1µl trizol (phenol, chloroform, guanidine) in 1ml H2O

1µl chloroform in 1ml H2O

Measurement volume - 1 vs 2 µl

If your sample volume is very low, you may want to measure 1µl instead of the recommended 2µl. In my hands, however, this doubles the measurement error from about 0.5% to 1% standard deviation/mean. These figures are from repeated measurement of 2 RNA samples, which resulted in 3.5ng/µl SD for a mean of 689ng/µl (2µl volume) vs. 9.2ng/µl SD for a mean of 778ng/µl (1µl), n=5. -- Jakob 2009/7

Liquid column not formed

If you see that a liquid column is not being formed, the surfaces may have been un-conditioned by protein or surfactants. Rub each surface 15-20 times with a dry Kimwipe to buff. Using 2 μL samples should ensure the formation of a column.

Nanodrop gives strange readings

Occasionally, the Nanodrop can give strange readings. One method to help prevent against this is (after you blank the instrument and wipe the sensor) to pipette on 2 μL of your blank once more and click measure. Then verify that the absorbance is at or near 0 for all wavelengths. If it is not, reclean the sensor and start again. Perhaps this effect is due to a liquid column not being formed?

Nanodrop freezing - cable problems

We had issues of the Nanodrop freezing up sporadically during measurement such that the software became completely unresponsive and the machine was stuck in a measurement state. Tech support responded and said that static discharge can interfere with the computer/machine connection. They had previously sent out a batch of cables which were defective. The USB cable should be white not black. If your USB cable is black, you should probably call them up and ask for a replacement. --Austin 15:17, 18 April 2006 (EDT)

Lab Nanodrop pages

FAQ

Question

How does the Nanodrop convert A260 to concentration in ng/uL? Hp pavilion dv6 bluetooth driver windows 7 64 bit download.

Answer

From the nanodrop user manual (download at http://nanodrop.com/Support.aspx?Type=User%20Guides&Cat=NanoDrop%201000 )

General

The Beer-Lambert equation is used to correlate the calculated absorbance with concentration:
A = E * b * c
Where A is the absorbance represented in absorbance units (A), E is the wavelength-dependent molar absorptivity coefficient (or extinction coefficient) with units of liter/mol-cm, b is the path length in cm, and c is the analyte concentration in moles/liter or molarity (M).

For nucleic acid quantification, the Beer-Lambert equation is manipulated to give:

c = A/(E * b)
Where c is the nucleic acid concentration in ng/microliter, A is the absorbance in AU, e is the wavelength-dependent extinction coefficient in ng-cm/microliter and b is the path length in cm. The generally accepted extinction coefficients for nucleic acids are:
• Double-stranded DNA: 50
• Single-stranded DNA: 33
• RNA: 40
For the NanoDrop® ND-1000 Spectrophotometer,paths of 1.0 mm and 0.2 mm are used compared to a standard spectrophotometer using a 10.0 mm path. Thus, the NanoDrop® ND-1000 Spectrophotometer is capable of measuring samples that are 50 times more concentrated than can be measured in a standard spectrophotometer.

Note: absorbance data shown in archive files are represented as displayed on the software screen. For Nucleic Acid, Protein A280 and Proteins and Labels modules, data are normalized to a 1.0 cm (10.0 mm) path. For MicroArray, UV-Vis, Protein BCA, Protein Bradford, Protein Lowry and Cell Culture modules the data are normalized to a 0.1 cm (1.0 mm) path. For high absorbance UV-Vis samples, data are normalized to a 0.1mm path.

Other References

The Biopolymer Calculator (http://paris.chem.yale.edu/extinct.html) calculates the extinction coefficient of nucleic acid sequences using an established base composition and nearest neighbor algorithm.

Comparing concentrations obtained with the calculated extinction coefficient vs. the nanodrop constant:
Calculated concentration was ~20% lower for two RNA sequences (subtillis pheB and BBa_I7101 mRNA) ~~cmc 11:13, 2 Jun 2005 (EDT)

http://www.owczarzy.net/extinct.htm For more information on algorithms for calculating extinction coefficients.

Warshaw, Ph.D. Thesis, University of California, Berkeley, 1965
Warshaw and Tinoco, J. Mol. Biol., 20, 29 (1966)
Cantor and Warshaw, Biopolymers, 9, 1059 (1970)

Molecular Cloning, Third Edition, A8.19 on Quantitation of Nucleic Acids:

Suggests that for short oligos it is important to calculate the extinction coefficient of a sequence of interest, but that for large molecules the following average extinction co

Nanodrop Nd 1000 Software Mac