The largest database of trusted experimental protocols

Biodoc analyzer

Manufactured by Analytik Jena
Sourced in Germany

The BioDoc Analyzer is a versatile laboratory equipment designed for the analysis and documentation of various gel-based applications, such as agarose and polyacrylamide gels. It features a high-resolution camera and advanced imaging technology to capture and analyze gel images with precision. The core function of the BioDoc Analyzer is to provide researchers and scientists with a reliable tool for the accurate visualization and documentation of their experimental results.

Automatically generated - may contain errors

6 protocols using biodoc analyzer

1

Quantifying DNA Methylation via MSP

Check if the same lab product or an alternative is used in the 5 most similar protocols
The PCR products from the aforementioned reactions were resolved on a 2% agarose gel and visualized under an UV illuminator (BioDoc Analyzer, Biometra; Analytik Jena, Jena, Germany) using a 100 bp DNA size ladder. To establish the degree of methylation from qualitative MSP data, the change in methylation (Δ meth) value was calculated, as previously described (25 (link),26 (link)). The Δ meth value was calculated by subtracting the un-methylation values of a particular sample from its methylation values, when considering un-methylation as the default condition.
+ Open protocol
+ Expand
2

MCT and GLUT Expression in OLN-93 Cells

Check if the same lab product or an alternative is used in the 5 most similar protocols
The expression of MCT1-4 and GLUT1-4 was tested in OLN-93 cells by reverse transcriptase polymerase chain reaction (RT-PCR). Five of the 15 dishes per experimental setting were pooled for these analyses.
Total ribonucleic acid (RNA) was isolated from OLN-93 cell cultures using guanidinium isothiocyanate/phenol/chloroform (peqGOLD TriFast™, peqlab, Erlangen, Germany). For removing deoxyribonucleic acid (DNA) contamination, 5 μg of the total cell RNA was treated with Turbo DNA-free (Ambion, Austin, TX, USA) according to the manufacturer's instructions. RNA (4.5 μl; 2.25 μg input RNA) was reverse transcribed using the RevertAid™ H Minus First strand cDNA Synthesis Kit primed with Oligo(dT)18 primers (Fermentas, St. Leon-Rot, Germany; primers listed in the Table 1). cDNA (2 μL) was then PCR-amplified with Taq-DNA-polymerase (peqlab, Erlangen, Germany).
One-tenth of each reaction product was electrophoresed on a 1% agarose gel. The PCR product bands were quantified by densitometric analysis using a Biometra BioDocAnalyzer. Using glyceraldehyde-3-phosphate dehydrogenase (GAPDH) as a housekeeping gene for data normalization (GAPDH showed no medication-induced changes in expression), the ratio of MCT and GLUT expression to GAPDH expression was calculated.
+ Open protocol
+ Expand
3

RNA Extraction and Quantification

Check if the same lab product or an alternative is used in the 5 most similar protocols
Total RNA was extracted using TRIzol reagent according to the manufacturer's instructions, followed by DNase treatment (Thermo Fisher). RNA (2 µg) was used for first‐strand complementary DNA (cDNA) synthesis. Reverse‐transcription polymerase chain reaction (RT‐PCR) was performed with 200 ng cDNA, Taq DNA polymerase, and the primers listed in supplemental online Table 1. mRNA signals were quantified by densitometric analysis using a Biometra BioDoc‐Analyzer, and the ratio of their expression to that of a housekeeping gene (GAPDH) was calculated.
+ Open protocol
+ Expand
4

Gel Electrophoresis for RPA Efficiency

Check if the same lab product or an alternative is used in the 5 most similar protocols
For the detection of the RPA efficiency via gel electrophoresis, the products were purified with the Mag-Bind® Total Pure NGS Kit (Omega Bio-Tek; M1378-01) according to the manufactures instructions with a finishing eluation step in 15 µl ddH2O and 3 µl DNA Gel Loading Dye (6X) (Thermo Fisher Scientific; R0611) was added. An agarose gel with a 2% concentration in 1 × TAE-buffer (50 × TAE-buffer; PanReac AppliChem; A1691) was used for the separation of the fragments containing 2 µl of peqGreen (VWR; 732–3196) in a volume of 50 ml gel to visualize the band. A total volume of 18 µl of the purified and prepared samples were used for the electrophoresis which ran at 120 V for 1 h before the detection via BioDoc Analyzer (Biometra) including a Canon EOS 1100D was made.
The detection of the Cy5-dUTP labelled amplicons via microarray was performed without any purification of the RPA products.
+ Open protocol
+ Expand
5

Gel Electrophoresis of Purified DNA

Check if the same lab product or an alternative is used in the 5 most similar protocols
For gel electrophoretic analysis, 3 µl DNA Gel Loading Dye (6 x) (Thermo Fisher Scientific; R0611) were added to the purified (and digested) samples except the RsaI approach. For band visualization, a 2% agarose gel was prepared in 1 × TAE buffer (50 × TAE buffer; PanReac AppliChem; A1691) containing 4 µl peqGreen (VWR; 732-3196) per 100 ml gel. 12–15 µl of the purified and prepared samples were used for electrophoresis at 120 V for 1 h before detection via BioDoc Analyzer (Biometra) using a Canon EOS 1100D. GeneRuler Low Range DNA Ladder (Thermo Fisher Scientific; SM1191) and peqGOLD DNA ladder (VWR; 25-2040) were used for calculation of fragment length.
For the detection of incorporated Cy5-dUTP the DNA gel was scanned with a Tecan LS reloaded scanner using a 3D-printed gel tray.
+ Open protocol
+ Expand
6

Fluorescence-based Quinine Quantification

Check if the same lab product or an alternative is used in the 5 most similar protocols
Petri dishes containing either agarose alone or agarose in different concentrations and 6 mM quinine were prepared (for details in the concentrations please refer to the results). Taking into account that quinine solutions are highly fluorescent at about 460 nm (for details see http://www.olympusmicro.com/primer/techniques/fluorescence/fluorescenceintro.html) the plates were analyzed under UV light in BioDocAnalyzer (Biometra) and photos were taken. The mean pixel intensity of two defined spots of the same pixel size (~700 pixel) per plate were defined as region of interest (ROI). Per single plate one spot was always located in the center of the plate and one in the periphery along the same longitudinal axis to guarantee a similar illumination. Mean values for each ROI were calculated using Fiji. In each case 10 plates were analyzed.
+ Open protocol
+ Expand

About PubCompare

Our mission is to provide scientists with the largest repository of trustworthy protocols and intelligent analytical tools, thereby offering them extensive information to design robust protocols aimed at minimizing the risk of failures.

We believe that the most crucial aspect is to grant scientists access to a wide range of reliable sources and new useful tools that surpass human capabilities.

However, we trust in allowing scientists to determine how to construct their own protocols based on this information, as they are the experts in their field.

Ready to get started?

Sign up for free.
Registration takes 20 seconds.
Available from any computer
No download required

Sign up now

Revolutionizing how scientists
search and build protocols!