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(Reference retrieved automatically from Web of Science through information on FAPESP grant and its corresponding number as mentioned in the publication by the authors.)

GSVAscore reveals molecular signatures from transcriptomes for biomaterials comparison

Full text
Author(s):
Ferreira, Marcel R. [1] ; Santos, Gerson A. [1] ; Biagi, Carlos A. [2] ; Silva Junior, Wilson A. [2] ; Zambuzzi, Willian F. [1]
Total Authors: 5
Affiliation:
[1] Sao Paulo State Univ, UNESP, Lab Bioassays & Cellular Dynam, Dept Chem & Biochem, Inst Biosci, Campus Botucatu, Rua Prof Dr Irina Delanova, Botucatu, SP - Brazil
[2] Univ Sao Paulo, Ribeirao Preto Med Sch, Dept Genet, Genom Med Ctr, Ribeirao Preto, SP - Brazil
Total Affiliations: 2
Document type: Journal article
Source: Journal of Biomedical Materials Research Part A; v. 109, n. 6 SEP 2020.
Web of Science Citations: 0
Abstract

Two in silico methodologies were implemented to reveal the molecular signatures of inorganic hydroxyapatite and beta-TCP materials from a transcriptome database to compare biomaterials. To test this new methodology, we choose the array E-MTAB-7219, which contains the transcription profile of osteoblastic cell line seeded onto 15 different biomaterials up to 48 hr. The expansive potential of the methodology was tested from the construction of customized signatures. We present, for the first time, a methodology to compare the performance of different biomaterials using the transcriptome profile of the cell through the Gene set variation analysis (GSVA) score. To test this methodology, we implemented two methods based on MSigDB collections, using all the collections and sub-collections except the Hallmark collection, which was used in the second method. The result of this analysis provided an initial understanding of biomaterial grouping based on the cell transcriptional landscape. The comparison using GSVA score combined efforts and expand the potential to compare biomaterials using transcriptome profile. Altogether, our results provide a better understanding of the comparison of different biomaterials and suggest a possibility of the new methodology be applied to the prospection of new biomaterials. (AU)

FAPESP's process: 14/22689-3 - Microvesicle/proteins-mediated paracrine signaling among bone and endothelial cells during bone development and regeneration
Grantee:Willian Fernando Zambuzzi
Support Opportunities: Research Grants - Young Investigators Grants
FAPESP's process: 18/05731-7 - Lyophilized PRP associated with nano-hydroxyapatite in cell performance and bone regeneration
Grantee:Marcel Rodrigues Ferreira
Support Opportunities: Scholarships in Brazil - Doctorate
FAPESP's process: 15/03639-8 - Global signal transduction involved in the immediate response to the two surfaces of titanium alloys: building OsteoBLAST database
Grantee:Marcel Rodrigues Ferreira
Support Opportunities: Scholarships in Brazil - Master
FAPESP's process: 13/08135-2 - CTC - Center for Cell-Based Therapy
Grantee:Dimas Tadeu Covas
Support Opportunities: Research Grants - Research, Innovation and Dissemination Centers - RIDC