Dataset Information

Spurious Absorption Frequency Appearance Due to Frequency Conversion Processes in Pulsed THz TDS Problems.

ABSTRACT: The appearance of the spurious absorption frequencies caused by the frequency conversion process at the broadband THz pulse propagation in a medium is theoretically and experimentally discussed. The spurious absorption frequencies appear due to both the frequency doubling and generation of waves with sum or difference frequency. Such generation might occur because of the nonlinear response of a medium or its non-instantaneous response. This phenomenon is confirmed by the results of a few physical experiments provided with the THz CW signals and broadband THz pulses that are transmitted through the ordinary or dangerous substances. A high correlation between the time-dependent spectral intensities for the basic frequency and generated frequencies is demonstrated while using the computer simulation results. This feature of the frequency conversion might be used for the detection and identification of a substance.

SUBMITTER: Trofimov VA

PROVIDER: S-EPMC7181264 | biostudies-literature | 2020 Mar

REPOSITORIES: biostudies-literature

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Spurious Absorption Frequency Appearance Due to Frequency Conversion Processes in Pulsed THz TDS Problems.

Trofimov Vyacheslav A VA Wang Nan-Nan NN Qiu Jing-Hui JH Varentsova Svetlana A SA

Sensors (Basel, Switzerland) 20200327 7

The appearance of the spurious absorption frequencies caused by the frequency conversion process at the broadband THz pulse propagation in a medium is theoretically and experimentally discussed. The spurious absorption frequencies appear due to both the frequency doubling and generation of waves with sum or difference frequency. Such generation might occur because of the nonlinear response of a medium or its non-instantaneous response. This phenomenon is confirmed by the results of a few physica ...[more]

PMID: 32230860

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Project description:BackgroundGene set enrichment testing has helped bridge the gap from an individual gene to a systems biology interpretation of microarray data. Although gene sets are defined a priori based on biological knowledge, current methods for gene set enrichment testing treat all genes equal. It is well-known that some genes, such as those responsible for housekeeping functions, appear in many pathways, whereas other genes are more specialized and play a unique role in a single pathway. Drawing inspiration from the field of information retrieval, we have developed and present here an approach to incorporate gene appearance frequency (in KEGG pathways) into two current methods, Gene Set Enrichment Analysis (GSEA) and logistic regression-based LRpath framework, to generate more reproducible and biologically meaningful results.ResultsTwo breast cancer microarray datasets were analyzed to identify gene sets differentially expressed between histological grade 1 and 3 breast cancer. The correlation of Normalized Enrichment Scores (NES) between gene sets, generated by the original GSEA and GSEA with the appearance frequency of genes incorporated (GSEA-AF), was compared. GSEA-AF resulted in higher correlation between experiments and more overlapping top gene sets. Several cancer related gene sets achieved higher NES in GSEA-AF as well. The same datasets were also analyzed by LRpath and LRpath with the appearance frequency of genes incorporated (LRpath-AF). Two well-studied lung cancer datasets were also analyzed in the same manner to demonstrate the validity of the method, and similar results were obtained.ConclusionsWe introduce an alternative way to integrate KEGG PATHWAY information into gene set enrichment testing. The performance of GSEA and LRpath can be enhanced with the integration of appearance frequency of genes. We conclude that, generally, gene set analysis methods with the integration of information from KEGG PATHWAY performs better both statistically and biologically.

Dataset Information

Spurious Absorption Frequency Appearance Due to Frequency Conversion Processes in Pulsed THz TDS Problems.

Publications

Spurious Absorption Frequency Appearance Due to Frequency Conversion Processes in Pulsed THz TDS Problems.

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