Temporal analysis of gene expression

• Grant number: 19/23343-7
• Support type: Scholarships in Brazil - Post-Doctorate
• Effective date (Start): December 01, 2019
• Effective date (End): September 30, 2023
• Field of knowledge: Interdisciplinary Subjects
• Principal researcher: Roberto Marcondes Cesar Junior
• Grantee: Daniel Santa Cruz Damineli
• Home Institution: Faculdade de Medicina (FM). Universidade de São Paulo (USP). São Paulo , SP, Brazil
• Associated research grant: 15/22308-2 - Intermediate representations in Computational Science for knowledge discovery, AP.TEM

Abstract

Description of the project: The Laboratory of Pediatric Genomics, Pediatrics Department, Faculdade de Medicina da Universidade de São Paulo (FMUSP), offers a postdoctoral position for scientists interested in temporal analysis of gene expression. The project focus on the analysis of time-series gene expression data in order to get a better understanding of biological systems dynamics focusing the health-disease transition processes. The postdoctoral fellow will specifically work in two projects: i) development of mathematical and computational models for investigating hippocampal gene expression alterations in rats submitted to hyperthermic insult (an animal model for epilepsy induced by febrile insult); ii) temporal study of gene expression alterations in human enterocytes during in vitro interaction with enteropathogenic bacteria. The PD researcher will be responsible to propose and implement models for intermediate network representations from raw data. The research will take into account various data sources, inconsistencies and uncertainties in them. The proposed approach will combine different techniques for analysis and modelling (combinatorics, optimisation, and statistical methods) and different sources of experimental data (genomics, transcriptomics, proteomics, metabolomics) to deal with the inaccuracies. Of particular interest is how to incorporate machine learning methods to this approach. (AU)

Scientific publications

(5)

(References retrieved automatically from Web of Science and SciELO through information on FAPESP grants and their corresponding numbers as mentioned in the publications by the authors)

LI, KUNKUN; PRADA, JUAN; DAMINELI, DANIEL S. C.; LIESE, ANJA; ROMEIS, TINA; DANDEKAR, THOMAS; FEIJO, JOSE A.; HEDRICH, RAINER; KONRAD, KAI ROBERT. An optimized genetically encoded dual reporter for simultaneous ratio imaging of Ca2+ and H+ reveals new insights into ion signaling in plants. NEW PHYTOLOGIST, v. 230, n. 6, FEB 2021. (19/23343-7)

LOURENCO, JOSE; BARROS, SILVIA C.; ZE-ZE, LIBIA; DAMINELI, DANIEL S. C.; GIOVANETTI, MARTA; OSORIO, HUGO C.; AMARO, FATIMA; HENRIQUES, ANA M.; RAMOS, FERNANDA; LUIS, TIAGO; et al. est Nile virus transmission potential in Portuga. COMMUNICATIONS BIOLOGY, v. 5, n. 1, JAN 10 2022. (15/22308-2, 19/23343-7, 20/06160-3)

PINOTTI, FRANCESCO; WIKRAMARATNA, PAUL S.; OBOLSKI, URI; PATON, ROBERT S.; DAMINELI, DANIEL S. C.; ALCANTARA, LUIZ C. J.; GIOVANETTI, MARTA; GUPTA, SUNETRA; LOURENCO, JOSE. Potential impact of individual exposure histories to endemic human coronaviruses on age-dependent severity of COVID-19. BMC MEDICINE, v. 19, n. 1, JAN 12 2021. (20/06160-3, 19/23343-7)

HOFFMANN, ROBERT D.; PORTES, MARIA TERESA; OLSEN, LENE IRENE; DAMINELI, DANIEL SANTA CRUZ; HAYASHI, MAKI; NUNES, CUSTODIO O.; PEDERSEN, JESPER T.; LIMA, PEDRO T.; CAMPOS, CLAUDIA; FEIJO, JOSE A.; et al. Plasma membrane H+-ATPases sustain pollen tube growth and fertilization. NATURE COMMUNICATIONS, v. 11, n. 1, MAY 14 2020. (19/23343-7)

PORTES, MARIA TERESA; DAMINELI, DANIEL S. C.; FEIJO, JOSE A.. Spatiotemporal Quantification of Cytosolic pH in Arabidopsis Pollen Tubes. BIO-PROTOCOL, v. 11, n. 14, JUL 20 2021. (19/26129-6, 19/23343-7, 15/22308-2, 21/05363-0)