scholarly journals Principal component analysis on LC‑MS/MS and 2DE‑MALDI‑TOF in glioblastoma cell lines reveals that mitochondria act as organelle sensors of the metabolic state in glioblastoma

2020 ◽  
Vol 44 (2) ◽  
pp. 661-673
Author(s):  
Leopoldo Gómez‑Caudillo ◽  
Ariadna Ortega‑Lozano ◽  
Ángel Martínez‑Batallar ◽  
Haydee Rosas‑Vargas ◽  
Fernando Minauro‑Sanmiguel ◽  
...  
Keyword(s):  
Principal Component Analysis ◽  
Cell Lines ◽  
Principal Component ◽  
Component Analysis ◽  
Glioblastoma Cell ◽  
Metabolic State ◽  
Maldi Tof ◽  
Glioblastoma Cell Lines

scholarly journals Effects of Collagen–Glycosaminoglycan Mesh on Gene Expression as Determined by Using Principal Component Analysis-Based Unsupervised Feature Extraction

Polymers ◽  
2021 ◽  
Vol 13 (23) ◽  
pp. 4117
Author(s):  
Y-h. Taguchi ◽  
Turki Turki
Keyword(s):  
Gene Expression ◽  
Principal Component Analysis ◽  
Feature Extraction ◽  
Cell Lines ◽  
Time Course ◽  
Expression Profiles ◽  
Principal Component ◽  
Component Analysis ◽  
Altered Expression ◽  
Unsupervised Feature Extraction

The development of the medical applications for substances or materials that contact cells is important. Hence, it is necessary to elucidate how substances that surround cells affect gene expression during incubation. In the current study, we compared the gene expression profiles of cell lines that were in contact with collagen–glycosaminoglycan mesh and control cells. Principal component analysis-based unsupervised feature extraction was applied to identify genes with altered expression during incubation in the treated cell lines but not in the controls. The identified genes were enriched in various biological terms. Our method also outperformed a conventional methodology, namely, gene selection based on linear regression with time course.

Principal component analysis of MALDI-TOF MS of whole-cell foodborne pathogenic bacteria

2020 ◽  
Vol 592 ◽  
pp. 113582 ◽  
Author(s):  
Wenjing Yan ◽  
Jing Qian ◽  
Yongjie Ge ◽  
Keping Ye ◽  
Cunshan Zhou ◽  
...  
Keyword(s):  
Principal Component Analysis ◽  
Pathogenic Bacteria ◽  
Principal Component ◽  
Component Analysis ◽  
Whole Cell ◽  
Maldi Tof Ms ◽  
Maldi Tof ◽  
Foodborne Pathogenic Bacteria ◽  
Tof Ms

scholarly journals Main biological determinants of Continuous Cell Lines elucidated by a principal component analysis

Caryologia ◽  
2011 ◽  
Vol 64 (3) ◽  
pp. 309-319
Author(s):  
Zaven A. Karalyan ◽  
Zarine R. Ter-Pogossyan ◽  
Nellie G. Djaghatspanyan ◽  
Lina H. Hakobyan ◽  
Hovakim S. Zakaryan ◽  
...  
Keyword(s):  
Principal Component Analysis ◽  
Cell Lines ◽  
Principal Component ◽  
Component Analysis ◽  
Continuous Cell Lines ◽  
Biological Determinants

scholarly journals Effects of the collagen–glycosaminoglycan mesh on gene expression as determined by using principal component analysis-based unsupervised feature extraction

2021 ◽  
Author(s):  
Y-h. Taguchi ◽  
Turki Turki
Keyword(s):  
Gene Expression ◽  
Principal Component Analysis ◽  
Feature Extraction ◽  
Cell Lines ◽  
Time Course ◽  
Expression Profiles ◽  
Principal Component ◽  
Component Analysis ◽  
Altered Expression ◽  
Unsupervised Feature Extraction

AbstractDevelopment of the medical applications for substances or materials that contact the cells is important. Hence, it is necessary to elucidate how substance that surround cells affect the gene expression during incubation. Here, we compared the gene expression profiles of cell lines that were in contact with the collagen–glycosaminoglycan mesh and control cells. Principal component analysis-based unsupervised feature extraction was applied to identify genes with altered expression during incubation in the treated cell lines but not in the controls. The identified genes were enriched in various biological terms. Our method also outperformed a conventional methodology, namely, gene selection based on linear regression with time course.

Collagen-based proteinaceous binder-pigment interaction study under UV ageing conditions by MALDI-TOF-MS and principal component analysis

2012 ◽  
Vol 47 (3) ◽  
pp. 322-330 ◽  
Author(s):  
Julia Romero-Pastor ◽  
Natalia Navas ◽  
Stepanka Kuckova ◽  
Alejandro Rodríguez-Navarro ◽  
Carolina Cardell
Keyword(s):  
Principal Component Analysis ◽  
Principal Component ◽  
Component Analysis ◽  
Interaction Study ◽  
Maldi Tof Ms ◽  
Maldi Tof ◽  
Uv Ageing ◽  
Proteinaceous Binder ◽  
Tof Ms

scholarly journals Principal component analysis of MALDI TOF MS mass spectra separates M. abscessus (sensu stricto) from M. massiliense isolates

2016 ◽  
Vol 16 (1) ◽  
Author(s):  
Jan Kehrmann ◽  
Sarah Wessel ◽  
Roshni Murali ◽  
Annegret Hampel ◽  
Franz-Christoph Bange ◽  
...  
Keyword(s):  
Principal Component Analysis ◽  
Mass Spectra ◽  
Principal Component ◽  
Component Analysis ◽  
Sensu Stricto ◽  
Maldi Tof Ms ◽  
Maldi Tof ◽  
Tof Ms

scholarly journals Comparison of the Usefulness of the MTT, ATP, and Calcein Assays to Predict the Potency of Cytotoxic Agents in Various Human Cancer Cell Lines

2004 ◽  
Vol 9 (6) ◽  
pp. 506-515 ◽  
Author(s):  
Henrik Mueller ◽  
Matthias U. Kassack ◽  
Michael Wiese
Keyword(s):  
Principal Component Analysis ◽  
Cell Viability ◽  
Cell Lines ◽  
Cancer Cell ◽  
Human Cancer ◽  
Principal Component ◽  
Component Analysis ◽  
Cancer Cell Lines ◽  
Human Cancer Cell ◽  
Human Cancer Cell Lines

Cell viability assays are important tools in oncological research and clinical practice to assess the tumor cell sensitivity of individual patients. The purpose of this study was to demonstrate the comparability of 3 widely used assays (MTT, ATP, calcein assays) by principal component analysis. The study included 4 different cytostatics (cisplatin, docetaxel, doxorubicin, vinblastine) and 3 different human cancer cell lines (MCF-7, A2780, doxorubicin resistant A2780adr). Ninety-three percent of the total variance of all variables included in the principal component analysis (resulting from 3 cell lines and 3 assays) could be explained by 1 principal component. Factor loadings were > 0.937 except for the variable MTT-A2780adr, which was 0.872. These results indicate the similarity of the 3 assays. A 2nd principal component analysis included literature data and showed accordance of data from this study and the literature. The MTT assay was further improved as a high-throughput screening–capable assay. The ATP assay is able to detect effects of cytostatics already after 1 h incubation. The determination of resistance factors allowed to differentiate cytostatics into P-gp or non-P-gp substrates. In conclusion, this study provides improved microplate reader-based cell viability assays and sets a statistically solid basis for a future comparison of data obtained in different laboratories by any of the 3 assays.

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