(2008). A fast SEQUEST cross correlation algorithm. J Proteome Res 7: 4598–4602. Friedrich CG, Rother D, Bardischewsky F, Quentmeier A, Fischer J. (2001). Oxidation of reduced inorganic sulfur compounds by bac
A fast SEQUEST cross correlation algorithm J. Proteome Res. (2008) L.E. Epperson et al. Quantitative assessment of ground squirrel RNA levels in multiple stages of hibernation Physiol. Genomics (2002) L.E. Epperson et al. Seasonal proteomic changes reveal molecular adaptations to preserve and re...
A fast SEQUEST cross correlation algorithm J. Proteome Res, 7 (2008), pp. 4598-4602 CrossrefView in ScopusGoogle Scholar 24 D.L. Tabb, W.H. McDonald, J.R. Yates 3rd DTASelect and Contrast: tools for assembling and comparing protein identifications from shotgun proteomics J. Proteome Res...
Rigid-body protein–protein docking was completed using ZDOCK, which uses the Fast Fourier Transform algorithm to enable an efficient global docking search on a 3D grid, followed by scoring [59]. RosettaDock, based on the Monte Carlo algorithm, was used to search the rigid-body and side-...
Within OmicVerse, the GLUE_pair algorithm leverages the Pearson correlation coefficient to compute cell similarity between scRNA-seq and scATAC-seq base on embedding from GLUE (Fig.6a). The accuracy of GLUE_pair is verified using the Adjusted Rand Score (ARI) to confirm cell type congruence post...
Plants usually produce defence metabolites in non-active forms to minimize the risk of harm to themselves and spatiotemporally activate these defence metabolites upon pathogen attack. This so-called two-component system plays a decisive role in the chemi
Centroid data is raw data that has been processed by an algorithm to retain only the local maximum in each range in which an ion is detected. Because each ion detected creates an m/z distribution of signal, the distribution itself (in profile mode) or the maximum to which it is reduced ...
A Simplified Flowchart for the Sequest Algorithm Showing the Process by which Sequest Provides Scores Used to Identify PeptidesLeo, McHughJonathan, W Arthur
Data dependent proteomic analysis was performed on two different chocolate samples and all MS/MS data collected were processed via the commercial Proteome Discoverer software using SEQUEST as probability-score algorithm (1–3). This is one of the most popular scoring schemes, measuring the degree of...
For reporter ion quantification in the TMT-labeled experiments, MS spectra files were processed using Proteome Discoverer version 2.3 with the SEQUEST-HT algorithm against the HUMAN UniProt sequence database (December 2014, 88,757 entries) and common contaminants. The raw spectrum was filtered with ...