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Systems Biology-Based Analysis Indicates Global Transcriptional Impairment in Lead-Treated Human Neural Progenitor Cells

Clovis F. Reis, Iara D. de Souza, Diego A. A. Morais, Raffael A. C. Oliveira, Danilo O. Imparato, Rita M. C. de Almeida, Rodrigo J. S. Dalmolin
2019 Frontiers in Genetics  
For long treatment times (12 to 26 days), it was possible to observe a massive impairment in cell transcription profile.  ...  In order to investigate the effects of lead poisoning in a systemic perspective, we applied the transcriptogram methodology in an RNA-seq dataset of human embryonic-derived neural progenitor cells (ES-NP  ...  The transcriptogram is a systems biology-based method for transcriptional analysis, which uses PPI information to build an ordered gene list where interacting genes are expected to get closer to each other  ... 
doi:10.3389/fgene.2019.00791 pmid:31552095 pmcid:PMC6748217 fatcat:htpf2rskarcddf5qzle5fbgbtm

Basal and stress-induced expression changes consistent with water loss reduction explain desiccation tolerance of natural Drosophila melanogaster populations [article]

Vivien Horvath, Sara Guirao-Rico, Judit Salces-Ortiz, Gabriel E Rech, Llewellyn Green, Eugenio Aprea, Mirco Rodeghiero, Gianfranco Anfora, Josefa Gonzalez
2022 bioRxiv   pre-print
Moreover, we showed that, beyond starvation and aging, tRNA-derived small RNA fragments (tRFs) appear to be relevant post-transcriptional gene regulators in response to desiccation stress.  ...  Our results showed that by integrating transcriptomics with physiological trait analysis we can pinpoint the genetic basis of the differences in tolerance to desiccation stress found in natural D. melanogaster  ...  Protein-protein interaction (PPI) network analysis.  ... 
doi:10.1101/2022.03.21.485105 fatcat:s4bgth6alvdy3dz7ytpx5m4pme

III Simpósio Norte e Nordeste de Bioinformática

Alex Monteiro, Marcus Tullius Scotti, Luciana Scotti
2019 Figshare  
For this, we draw diagrams for the digestive system secretion pathways based on models available in KEGG Pathway database.  ...  No presente trabalho, aplicamos o pipeline do pacote transcriptogramer R/Bioconductor com a finalidade de avaliar o perfil transcricional de células progenitoras neurais humanas (NPCs) tratadas com acetato  ...  The functional analysis of the target genes of these microRNAs was enriched in gene expression, transcription, regulation of Hippo signaling, protein import, negative regulation of TOR signaling and cell  ... 
doi:10.6084/m9.figshare.7992101.v1 fatcat:vrqgrvgtfncgfhk4ryxwxvghie