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Upon binding to DNA, the dye molecules assume a more rigid shape and increase in fluorescence by several orders of magnitude, most likely due to intercalation between the bases. [9] [10] The Qubit fluorometer, a device designed to measure fluorescence signals from samples, operates by correlating these signals with known concentrations of probes.
For pure DNA, A 260/280 is widely considered ~1.8 but has been argued to translate - due to numeric errors in the original Warburg paper - into a mix of 60% protein and 40% DNA. [6] The ratio for pure RNA A 260/280 is ~2.0. These ratios are commonly used to assess the amount of protein contamination that is left from the nucleic acid isolation ...
DNADynamo is a general purpose DNA and Protein sequence analysis package that can carry out most of the functions required by a standard research molecular biology laboratory DNA and Protein Sequence viewing, editing and annotating; Contig assembly and chromatogram editing including comparison to a reference sequence to identify mutations
It considers hundreds of modifications, non-tryptic cleavages, and amino acid substitutions. It uses the Pro Group Algorithm for protein inference analysis to report a minimal set of proteins justified based on the peptide evidence. ProteinPilot supports quantification for label-based workflows (iTRAQ reagents, mTRAQ reagents and SILAC labeling).
A computer-assisted design (CAD) tool for synthetic biology, used to design genetic constructs based on grammar rules. Linux, macOS, Windows: Apache License 2.0 GenoCAD Team (Virginia Bioinformatics Institute) Genomespace: Centralized web application that provides data format transformations and facilitates connections with other bioinformatics ...
The concentration of a certain protein in a sample may be determined using spectrophotometric procedures. [5] The concentration of a protein can be determined by measuring the OD at 280 nm on a spectrophotometer, which can be used with a standard curve assay to quantify the presence of tryptophan, tyrosine, and phenylalanine. [6]
DNA sequencing; Expression cloning; Fluorescence in situ hybridization; Lab-on-a-chip; Comparison of nucleic acid simulation software; Northern blot; Nuclear run-on assay; Radioactivity in the life sciences; Southern blot; Differential centrifugation (sucrose gradient) Toeprinting assay; Several bioinformatics methods, as seen in list of RNA ...
At this step, sequencing reads whose quality have been improved are mapped to a reference genome using alignment tools like BWA [17] for short DNA sequence reads, minimap [18] for long read DNA sequences, and STAR [19] for RNA sequence reads. The purpose of mapping is to find the origin of any given read based on the reference sequence.
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