Database and Software Development
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| 294413 |
A database of viral taxon-specific profile HMMs for the detection and classification of viral sequences |
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Liliane Santana Oliveira Kashiwabara, Wendel Hime Lima Castro, Arthur Gruber |
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| 297927 |
PLANT CO-EXPRESSION ANNOTATION RESOURCE 2.0: A WEB TOOL FOR THE ASSOCIATION OF PROTEINS OF UNKNOWN FUNCTION TO ABIOTIC STRESSES IN PLANTS |
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Marcos José Andrade Viana, Adhemar Zerlotini Neto, Maurício de Alvarenga Mudadu |
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| 298211 |
ToxAnalyzer: A tool for Comparative Toxicogenomics Database (CTD)™ data analysis and visualization |
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Daniel Ribeiro Rodrigues, Diego César Batista Mariano, Lucianna Helene Silva dos Santos, Carlos Alberto Tagliati |
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|
| 303169 |
A machine-learning scoring function for protein-ligand molecular docking |
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Oscar Emilio Arrúa Arce, Andrej Aderhold, Adriano Velasque Werhli, Karina dos Santos Machado |
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| 304988 |
Machine Learning models applied to the subtypes classification of Acute Myeloid Leukemia and Myelodysplastic Syndrome |
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Fábio Malta de Sá Patroni, Marcelo Mendes Brandão |
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Education and Outreach
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| 303431 |
LEAGUE OF BRAZILIAN BIOINFORMATICS: CHALLENGES TO PROMOTE SCIENTIFIC TRAINING |
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Lucas Miguel de Carvalho, Neli Jose da Fonseca Junior, Raquel Riyuzo de Almeida Franco, Elvira C Alves Horacio, Maira Rodrigues de Camargo Neves, Nilson Coimbra, Mayla Abrahim Costa, Flavia Figueira Aburjaile, Sheila Tiemi Nagamatsu |
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Genes and Genomics
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| 296059 |
A survey of bacterial and archaeal genomes reveals novel casposon elements and hosts |
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Táriky Meirelles Rocha, Liliane Santana Oliveira Kashiwabara, Bas Dutilh, Arthur Gruber |
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|
| 296609 |
GenTreat: Computational pipeline to perform automated hybrid assembly |
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Victória Cardoso dos Santos, Gislenne da Silva Moia, Mônica Silva de Oliveira, Pablo Henrique Caracciolo Gomes de Sá, Jorianne Thyeska Castro Alves, Adonney Allan de Oliveira Veras |
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|
| 297651 |
COMPUTATIONAL PIPELINE FOR THE IDENTIFICATION OF HLA SOMATIC MUTATIONS: CAN SNV/INDELS EXPLAIN IMMUNOTHERAPY FAILURE IN NON-MUSCLE INVASIVE BLADDER CANCER? |
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Ramon Torreglosa do Carmo, Giulia W. Frigugliett, Diogo A Bastos, Vitor Rezende da Costa Aguiar, Fabiana Bettoni, Diogo Meyer, Erick da Cruz Castelli, Anamaria A. Camargo, Cibele Masotti |
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|
| 297674 |
Complexity Analysis of Algorithms: A case study about Bioinformatics Tools |
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Gislenne da Silva Moia, Luan Ribeiro Siqueira, Victória Cardoso dos Santos, Mônica Silva de Oliveira, Adonney Allan de Oliveira Veras |
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|
| 297709 |
DNA methylation and functional annotation of CpG-SNPs in the TIMP3 locus associated with TIMP3 levels and preeclampsia |
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Juliana de Oliveira Cruz, Daniela Alves Pereira, Natalia Duarte Linhares, Marcelo Rizzatti Luizon |
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|
| 297728 |
Resistome profile of Acinetobacter baumannii |
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Diego Lucas Neres Rodrigues, Francielly Rodrigues da Costa, Roselane Gonçalves dos Santos, Flavia Figueira Aburjaile, Vasco A de C Azevedo |
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|
| 297956 |
Analysis of UVA induced mutagenesis in translesion synthesis-deficient human cells |
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Camila Corradi, Nathalia Quintero Ruiz, Natália Cestari Moreno, Tiago Antonio de Souza, Carlos Frederico Martins Menck |
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|
| 297987 |
Mesoscopic evaluation of DNA mismatches in PCR primers for SARS-CoV-2 detection |
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Pâmella Miranda de Moura, Gerald Weber |
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|
| 298052 |
A PUTATIVE ENHANCER REGION ACTIVATED BY METFORMIN OVERLAPS WITH SNPS ASSOCIATED WITH VISTAFIN/NAMPT LEVELS |
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Daniela Alves Pereira, Lídia Lana Ferreira Coura, Marcelo Rizzatti Luizon |
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|
| 298089 |
FUNCTIONAL ANNOTATION OF INTRONIC SNPs OF ARG2 GENE ASSOCIATED WITH FETAL HEMOGLOBIN LEVELS IN PATIENTS WITH SICKLE CELL ANEMIA TREATED WITH HYDROXYUREA |
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Bárbara Lisboa Nogueira, Rahyssa Rodrigues Sales, Marcelo Rizzatti Luizon |
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|
| 298111 |
The genomic signature of Fungi at the gene- and pathway-levels |
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Aline Soares dos Reis, Alison Menezes, Francisco Pereira Lobo |
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|
| 300241 |
In silico strategies to identify IP3 receptors and their function in activation of the plasma membrane H(+)-ATPase in Saccharomyces cerevisiae cells |
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Raquel D. Penido, Sayonara Quaresma Alves Campos, Cleberson Marcelo dos Santos, Rodrigo Bentes Kato, Aureliano Claret da Cunha, ROGELIO LOPES BRANDAO, Izinara Rosse |
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|
| 301064 |
Characterization of bacteriocins in Xanthomonas citri |
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Milena Gomes Cabral, Juan Carlos Ariute, Ana Maria Benko-Iseppon, Flavia Figueira Aburjaile |
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|
| 301462 |
TEN COMPLETE MITOCHONDRIAL GENOMES OF GYMNOCHARACINI (STETHAPRIONINAE, CHARACIFORMES) |
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Matheus Lewi Cruz Bonaccorsi de Campos, Iuri Batista da Silva, Rubens Pasa, Fabiano Menegidio, Igor Henrique Rodrigues-Oliveira, Dinaíza Abadia Rocha-Reis, John Seymour (Pat) Heslop-Harrison, Trude Schwarzacher, Karine Frehner Kavalco |
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|
| 303040 |
Metagenomic analysis of the enzyme a-Galactosidase in two soil samples |
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Jéssica Patricia De Sá Souza, Sthephanye Katherine Ferreira Gomes, Maricy Raquel Lindenbah Bonfá, Rodrigo Matheus Pereira |
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|
| 303108 |
How much primer choice affects the perceived biodiversity? A case study of bat diet according to three COI gene regions. |
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Marcele Laux, Enrico Bernard, Renato Renison Moreira Oliveira, Angélico Fortunato Asenjo Flores, Eder Soares Pires, Ronnie Alves, Gisele Nunes Lopes, Guilherme Oliveira |
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|
| 303186 |
Mining of 141,456 high-quality human exomes and genomes reveals the presence of 10,909 putative immunoglobulin heavy chain IGHV variants |
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Fábio Martins, Lucas Alves de Melo Pontes, Tiago Mendes, Liza Figueiredo Felicori Vilela |
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|
| 304798 |
Elucidating the multiple genetic lineages using SNP data in livestock |
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Luiz Afonso Glatzl Junior, Marcos Vinicius Gualberto Barbosa da Silva, Saulo Moraes Villela |
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|
| 305268 |
Role of functional polymorphisms in the p53 pathway genes and the genetic susceptibility to Congenital ZIKV Syndrome |
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Julia do Amaral Gomes, Eduarda Sgarioni, Igor Araujo Vieira, Lucas R Fraga, Patrícia Ashton-Prolla, Ana Cláudia P Terças-Tretell, Marcial Francis Galera, Maria Denise Fernandes Carvalho de Andrade, Lavinia Schuler-Faccini, Fernanda Sales Luiz Vianna |
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|
| 305296 |
Large runs of homozigozity regions in Arapaima gigas (Pirarucu) suggest the existence of genomic regions in single-copy and a sex-related dosage-compensation mechanism. |
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Renata Lilian Dantas Cavalcante, José Miguel Ortega, SIDNEY EMANUEL B DOS SANTOS, Jorge Estefano Santana De Souza, Tetsu Sakamoto |
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|
| 305812 |
Unraveling potential probiotic features in the genome of Lactobacillus paragasseri |
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Rodrigo Dias de Oliveira Carvalho, Flavia Figueira Aburjaile, Rodrigo Profeta Silveira Santos, Marcus Vinicius Canário Viana, Vasco Ariston de Carvalho Azevedo |
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|
| 307886 |
Predicting melting temperatures and deriving hydrogen bonds using the Peyrard-Bishop model for LNA+DNA:DNA sequences |
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Izabela Ferreira, Gerald Weber |
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Phylogeny and Evolution
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| 301463 |
AMONG GENERA: A PHYLOGENETIC INFERENCE WITH MITOGENOMES OF NINE SPECIES OF STETHAPRIONINAE (CHARACIDAE, CHARACIFORMES) |
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Iuri Batista da Silva, Matheus Lewi Cruz Bonaccorsi de Campos, Rubens Pasa, Fabiano Menegidio, Igor Henrique Rodrigues-Oliveira, Dinaíza Abadia Rocha-Reis, John Seymour (Pat) Heslop-Harrison, Trude Schwarzacher, Karine Frehner Kavalco |
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|
| 303178 |
Effects of Alignment Characteristics on Distance-based Tree Reconstruction |
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Guilherme Taborda Ribas, Roberto Tadeu Raittz, ALEXANDRE GORI DE CASTILHO, Jeroniza Nunes Marchaukoski, Dieval Guizelini |
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|
| 307927 |
First-ever described Virome of the Amazonian Lake Bolonha: contributions to the understanding of water-related public health concerns |
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Bruna Verônica Azevedo Gois, Kenny da Costa Pinheiro, Wylerson Guimarães Nogueira, Andressa de Oliveira Aragão, Ana Lidia Queiroz Cavalcante, adriana ribeiro carneiro folador, Rommel Thiago Jucá Ramos |
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|
| 307952 |
Assembly, annotation and gene editing of the genome of the PH8 strain of Leishmania amazonensis with focus on multigene families encoding virulence factors |
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Wanessa Moreira Goes, Carlos Rodolpho Ferreira Brasil, João Luís Reis Cunha, Anderson Coqueiro-dos-Santos, Viviane Grazielle da Silva, Daniella Bartholomeu, Ana P. S. M. Fernandes, Santuza Maria Ribeiro Teixeira |
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Proteins and Proteomics
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| 296745 |
The extracellular vesicles produced by the probiotic Propionibacterium freudenreichii in different conditions share a core proteome that includes immunomodulatory proteins |
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Vinícius de Rezende Rodovalho, Brenda Silva Rosa da Luz, Fillipe Luiz Rosa do Carmo, Gwenaël Jan, Yves Le Loir, Vasco A de C Azevedo, Eric Guedon |
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|
| 301377 |
ANTIGENIC VARIABILITY OF DENGUE VIRUS NON-STRUCTURAL PROTEIN 1 AND ITS IMPACT ON THE DEVELOPMENT OF DIAGNOSTIC MODELS |
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UBIRATAN DA SILVA BATISTA, ANA CLARA GOMES DE SOUZA, Túlio César Rodrigues Leite, RICARDO LEMES GONÇALVES, Breno De Mello Silva |
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|
| 302913 |
Classification of amino acid residue pairs using GMM and EM Algorithm |
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Higor Coimbra Amorim |
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|
| 302914 |
IMMUNOINFORMATICS APPROACHS TO DESIGN A CHIMERIC MULTI-EPITOPE VACCINE AGAINST MYCOPLASMA PNEUMONIAE |
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Thaís Cristina Vilela Rodrigues, Arun Kumar Jaiswal, Helioswilton Sales de Campos, Marta Giovanetti, Rodrigo Bentes Kato, Stephane Fraga de Oliveira Tosta, sandeep tiwari, Vasco A de C Azevedo, Siomar de Castro Soares |
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|
| 303067 |
Which substilisin/kexin like proprotein convertases PCSKs might be or not be implicated in SARS-Cov-2 cell to cell infection? |
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Arthur Pereira Fonseca, Lucianna Helene Silva dos Santos, Lucas Bleicher, José Miguel Ortega |
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|
| 305422 |
Unrevealing novel potential therapeutic targets in fungi extracellular vesicle proteins: a comparative study between pathogenic and non-pathogenic fungi species |
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Vinicius da Silva Coutinho Parreira, Letícia Graziela Costa Santos, Marcio Rodrigues, Fabio Passetti |
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RNA and Transcriptomics
|
| 294641 |
Metatranscriptomics analysis reveals diverse viral RNA in cutaneous papillomatous lesions and normal tissues of cattle |
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Adriana de Oliveira Fernandes, GERLANE DOS SANTOS BARROS, Marcus Vinicius de Aragão Batista |
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|
| 297986 |
Environmental plasticity of Staphylococcus aureus extracellular vesicles RNA content |
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Brenda Silva Rosa da Luz, Aurélie Nicolas, Svetlana Chabelskaya, Vinícius de Rezende Rodovalho, Yves Le Loir, Vasco A de C Azevedo, Brice Felden, Eric Guedon |
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|
| 298059 |
Analysis of expression of xylanases encoded in the genome of rust coffee fungus during different stages of infection |
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Júlia Santos Pereira, Túlio Morgan, Rafaela Zandonade Ventorim, Renato Lima Senra, Isabel Samila Lima Castro, Eveline Teixeira Caixeta, Tiago Mendes |
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|
| 298120 |
microRNAs, target-genes and pathways related to Gestational Diabetes Mellitus: searching for potential biomarkers |
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João Rafael Gonçalves Pereira, Izabela Mamede Costa Andrade da Conceição, Graziele Pimentel Coelho Almeida, Marcelo Rizzatti Luizon |
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|
| 298253 |
Pathway analysis of target-genes for microRNAs related the pathophysiology of Pre-eclampsia |
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Graziele Pimentel Coelho Almeida, Izabela Mamede Costa Andrade da Conceição, João Rafael Gonçalves Pereira, Marcelo Rizzatti Luizon |
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|
| 300190 |
miRNA-BASED PROGNOSTIC PREDICTOR FOR OVARIAN TUMORS USING MACHINE LEARNING |
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Cristiane Esteves Teixeira, Alexandre Chiavegatto Filho, Mariana Boroni |
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|
| 300276 |
Insights into plant adaptations to occupy a challenging Amazonian habitat |
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Mariana Dias, Cecílio Frois Caldeira, Guilherme Oliveira |
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|
| 300289 |
De novo transcriptomes of endangered Amazonian bats and the detection of a rich source of virus information |
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Mariana Dias, Santelmo Vasconcelos, Leonardo Trevelin, Renato Renison Moreira Oliveira, Mariane Ribeiro, Guilherme Oliveira |
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|
| 300776 |
Evaluation of lncRNAs as potential prognostic biomarkers in metastatic melanoma using machine learning |
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Guilherme Duarte de Moraes, Cristiane Esteves Teixeira, Nicole de Miranda Scherer, Mariana Boroni |
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|
| 300869 |
Modeling alelle-specific expression in complex polyploids |
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Fernando Henrique Correr, Agnelo Furtado, Antonio Augusto Franco Garcia, Robert James Henry, Gabriel Rodrigues Alves Margarido |
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|
| 302700 |
Interactive Meta-analysis Framework for Biomarker Identification in Breast Cancer subtypes. |
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Nathan de Oliveira Nunes, Ana Claudia Oliveira Carreira, Milton Yutaka Nishiyama Junior |
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|
| 303012 |
Classification of mRNA and ncRNA sequences: a study based on complex networks and filter by exclusivity |
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Murilo Montanini Breve, Fabrício Martins Lopes |
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|
| 303033 |
A wide tRNA-derived small RNA annotation in Astatotilapia latifasciata with B chromosome presence or absence. |
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Luiz Augusto Bovolenta, Adauto Lima Cardoso, Rafael Takahiro Nakajima, Jordana Inácio Nascimento Oliveira, Bruno Evaristo de Almeida Fantinatti, Rafael Luiz Buogo Coan, Cesar Martins |
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|
| 303082 |
Bioinformatics analysis reveals novel long non-coding RNA candidates in Ewing sarcoma |
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Rafael Luiz Buogo Coan, Caroline Brunetto de Farias, André Tesainer Brunetto, Marialva Sinigaglia, Ney Lemke |
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|
| 303086 |
Integrative analyses of single-cell and bulk transcriptomics to study the tumor microenvironment in high-grade serous ovarian cancer |
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Giovanna Resk Maklouf, Gabriela Rapozo Guimarães, Palloma Porto Almeida, MARCO ANTONIO MARQUES PRETTI, Mariana Boroni |
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|
| 303096 |
Comparative midgut transcriptome analysis of Helicoverpa armigera feeding on natural conditions |
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André Ricardo Oliveira Conson, Natalia Faraj Murad, Karina Lucas da Silva Brandão, Fernando Luis Cônsoli, Celso Omoto, Marcelo Mendes Brandão |
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|
| 303133 |
Metformin regulates cells epigenomic landscape leading to decreased proliferation and inflammation in hepatocytes |
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Izabela Mamede Costa Andrade da Conceição, Lucio Rezende Queiroz, Paula Silva Matos, Gloria Regina Franco, Marcelo Rizzatti Luizon |
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|
| 303167 |
Expression Analysis Integration with Inferencing of Gene Regulatory Networks |
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Juliana Costa-Silva, David Menotti, Fabrício Martins Lopes |
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|
| 303199 |
De novo transcriptome assembly and functional annotation of cobia (Rachycentron canadum) liver |
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David Aciole Barbosa, Bruno Cavalheiro Araújo, Alexandre Wagner Silva Hilsdorf, Luiz R. Nunes, Renata G. Moreira, Fabiano Bezerra Menegidio |
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|
| 303228 |
Molecular characterization of Saccharomyces cerevisiae industrial strain PE-2 under high ethanol conditions in industrial fermenters |
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THIAGO SENA SIMOES, Marcelo Mendes Brandão, Flavia Vischi Winck |
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|
| 304948 |
CHANGES INTHE EXPRESSION PROFILE OF TRANSCRIPT ISOFORMS IN MICE HEARTS CAUSED BY TRYPANOSOMA CRUZI INFECTION |
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Nayara Evelin de Toledo, Raphael Tavares da Silva, Tiago Bruno Rezende de Castro, Stellamaris Soares, Carlos Renato, Andréa Mara Macedo, Gloria Regina Franco |
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|
| 305282 |
Yclon: Ultrafast clustering of B cell clones from high-throughput immunoglobulin repertoire sequencing data |
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JOÃO HENRIQUE DINIZ BRANDÃO GERVÁSIO, Alice Ferreira de Souza, Liza Figueiredo Felicori Vilela |
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|
| 305366 |
Where the pro-proteases PCSKs that may cleave the SARS-Cov-2 spike for improving cell to cell infection are highly differentially expressed in the human body? |
| |
Lissur Azevedo Orsine, Arthur Pereira Fonseca, Glaura da Conceição Franco, José Miguel Ortega |
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|
| 305446 |
Improvement of Angiostrongylus costaricensis genome annotation using RNA-Seq data |
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ESDRAS MATHEUS GOMES DA SILVA, Karina Mastropasqua Rebello, Makedonka Mitreva, James McKerrow, Ana Gisele da Costa Neves Ferreira, Fabio Passetti |
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|
| 305587 |
A novel mitovirus from the sand fly Lutzomyia longipalpis shows sRNA profiles consistent with siRNA pathway activation |
| |
Paula Luize Camargos Fonseca, Flavia Viana Ferreira, Felipe Ferreira da Silva, Liliane Santana Oliveira Kashiwabara, João Trindade Marques, Aristóteles Góes-Neto, Eric Roberto Guimarães Rocha Aguiar, Arthur Gruber |
| |
|
| 305749 |
Autophagy related genes influence global survival in Ewing's sarcoma |
| |
Matheus Dalmolin, Mauricio Gomes, Ricardo M. Ferreira, Caroline Brunetto de Farias, André Tesainer Brunetto, Mariane da Cunha Jaeger, Rafael Roesler, Marialva Sinigaglia, Rita Maria Cunha de Almeida |
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Systems Biology and Networks
|
| 297990 |
Dynamics of the feedback loops required for the phenotypic stabilization in the epithelial-mesenchymal transition |
| |
Daner Acunha Silveira, José Carlos Merino Mombach |
| |
|
| 300303 |
Study on Tsallis Entropy applied on Network Inference |
| |
Cassio Henrique dos Santos Amador, Fabrício Martins Lopes |
| |
|
| 302883 |
Network-based identification of subtype-specific candidate genes and associated drugs for new therapies in colorectal cancer |
| |
Cristóvão Antunes de Lanna, Nicole de Miranda Scherer, Luís Felipe Ribeiro Pinto, Mariana Boroni |
| |
|
| 302928 |
Multi-omics-based identification of SARS-CoV-2 infection biology and candidate drugs against COVID-19 |
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sandeep tiwari, Debmalya Barh, Marianna E. Ivanova, Vasco A de C Azevedo, Aristóteles Góes-Neto, M. Michael Gromiha, Preetam Ghosh |
| |
|
| 303479 |
Comparative analysis of genetic networks of Anticarsia gemmatalis Hübner, 1818 (Lepidoptera: Erebidae) obtained from transcriptomes of strains resistant and susceptible to the protein Cry of Bacillus thuringiensis |
| |
Freddy Eddinson Ninaja Zegarra, Rogério Fernandes de Souza, Fabrício Martins Lopes, Laurival Antônio Vilas Boas |
| |
|
| 305292 |
txGeneNetwork: transcript-level functional analysis using network biology |
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Izabela Mamede Costa Andrade da Conceição, Lucio Rezende Queiroz, Gloria Regina Franco |
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