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Profinder software b 08

Manufactured by Agilent Technologies

Profinder Software B.08.00 is a software application developed by Agilent Technologies for analyzing and processing data generated from mass spectrometry instruments. The software provides tools for identifying and quantifying compounds in complex samples.

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2 protocols using profinder software b 08

1

Multi-Omics Data Processing Pipeline

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All data were controlled and acquired using Mass Hunter Qualitative Analysis B.07.00 (Agilent Technologies). Data obtained from LC-MS and CE-MS were cleaned of background noise, unrelated ions, peak detection, deconvolution and alignment were performed by the recursive feature extraction (RFE) using Profinder Software B.08.00 (Agilent Technologies). Data obtained from GC-MS were processed by Unknowns Analysis Software B.09.00 (Agilent Technologies) to perform peak extraction and deconvolution. Alignment and integration were performed by Mass Profiler Professional 14.9 and MS Quantitative Analysis (Quant-My-Way) B.09.00. Blank subtraction and filtering by frequency of at least 50% of the QC and 70% of each group and relative standard deviation (RSD) less than 20% (LC-MS) and 30% (CE-MS and GC-MS) in QC were performed, to keep only the relevant features. Feature with higher RSD was removed from the data set. Missing values were substituted by KNN algorithm using MetaboAnalyst 4.0 Software [23 (link)]. Normalization by QC was applied to all data matrix and I.S applied only to GC-MS data. Beyond this, all data were log-transformed to get a normal distribution and used pareto scaling.
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2

Metabolomic Data Preprocessing Pipeline

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All data were controlled and acquired using Mass Hunter Qualitative Analysis B.07.00 (Agilent Technologies). Data obtained from LC–MS were cleaned of background noise and unrelated ions. Peak detection, deconvolution and alignment were performed by the recursive feature extraction (RFE) using Profinder Software B.08.00 (Agilent Technologies). Blank subtraction and filtering by frequency of at least 50% of the QC and 60% of each group and relative standard deviation (RSD) less than 30% in QC were performed, to keep only the relevant features. Missing values were substituted by KNN algorithm.
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