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Article ; Online: Physicochemical and in vitro biological evaluations of furazolidone-based β-cyclodextrin complexes in Leishmania amazonensis.

Carvalho, Suzana Gonçalves / Siqueira, Larissa Ataíde / Zanini, Marcos Santos / Dos Santos Matos, Ana Paula / Quaresma, Carla Holandino / da Silva, Luisa Mota / de Andrade, Sérgio Faloni / Severi, Juliana Aparecida / Villanova, Janaina Cecília Oliveira

Research in veterinary science

2018 Volume 119, Page(s) 143–153

Abstract: Recently, there have been numerous cases of leishmaniasis reported in different Brazilian states. The use of furazolidone (FZD) to treat leishmaniasis has been previously described; however, the drug is associated with adverse effects such as anorexia, ... ...

Abstract	Recently, there have been numerous cases of leishmaniasis reported in different Brazilian states. The use of furazolidone (FZD) to treat leishmaniasis has been previously described; however, the drug is associated with adverse effects such as anorexia, weight loss, incoordination, and fatigue in dogs. Thus, in the present study, we prepared and evaluated inclusion complexes between FZD and β-cyclodextrin (β-CD) to guarantee increased drug solubility and reduce the toxicity associated with high doses. The FZD:β-CD complexes were prepared by two different techniques (kneading and lyophilization) prior to incorporation in an oral pharmaceutical dosage form. Formation of the complexes was confirmed using appropriate physicochemical methods. Antileishmanial activity against L. amazonensis was tested in vitro via a microplate assay using resazurin dye and cytotoxicity was determined using the fibroblast L929 lineage. Solubility studies showed the formation of complexes with complexation efficiencies lower than 100%. Physicochemical analysis revealed that FZD was inserted into the β-CD cavity after complexation by both methods. Biological in vitro evaluations demonstrated that free FZD and the FZD:β-CD complexes presented significant leishmanicidal activity against L. amazonensis with IC
MeSH term(s)	Animals ; Antiprotozoal Agents/adverse effects ; Antiprotozoal Agents/pharmacology ; Brazil ; Furazolidone/adverse effects ; Furazolidone/pharmacology ; Leishmania mexicana/drug effects ; Parasitic Sensitivity Tests ; Treatment Outcome ; beta-Cyclodextrins/adverse effects ; beta-Cyclodextrins/pharmacology
Chemical Substances	Antiprotozoal Agents ; beta-Cyclodextrins ; Furazolidone (5J9CPU3RE0)
Language	English
Publishing date	2018-06-15
Publishing country	England
Document type	Journal Article
ZDB-ID	840961-4
ISSN	1532-2661 ; 0034-5288
ISSN (online)	1532-2661
ISSN	0034-5288
DOI	10.1016/j.rvsc.2018.06.013
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Article ; Online: Synthesis and evaluation of the antibiotic and adjuvant antibiotic potential of organotin(IV) derivatives.

Barbosa, Ana Soraya Lima / Guedes, Jéssica de Siqueira / da Silva, Douglas Rozendo / Meneghetti, Simoni Margareti Plentz / Meneghetti, Mario Roberto / da Silva, Amanda Evelyn / de Araujo, Morgana Vital / Alexandre-Moreira, Magna Suzana / de Aquino, Thiago Mendonça / de Siqueira Junior, José Pinto / de Araújo, Rodrigo Santos Aquino / da Cruz, Ryldene Marques Duarte / Mendonça-Junior, Francisco Jaime Bezerra

Journal of inorganic biochemistry

2017 Volume 180, Page(s) 80–88

Abstract: A series of organotin(IV) derivatives was investigated in vitro for their antibiotic and adjuvant antibiotic properties (efflux pump inhibitors) against Staphylococcus aureus strains that overexpress efflux pump proteins for norfloxacin (SA-1199B), ... ...

Abstract	A series of organotin(IV) derivatives was investigated in vitro for their antibiotic and adjuvant antibiotic properties (efflux pump inhibitors) against Staphylococcus aureus strains that overexpress efflux pump proteins for norfloxacin (SA-1199B), erythromycin (RN-4220) and tetracycline (IS-58). Most organotin(IV) compounds showed significant antibacterial activity with small Minimum Inhibitory Concentration (MIC) values, some of which were close to 1.0μg/mL (3.1μM), but this feature was also associated with substantial cytotoxicity. Nevertheless, the cytotoxicity of these organotin(IV) compounds can be overcome when they are used as antibiotic adjuvants. Their remarkable adjuvant antibiotic properties allow potentiation of the action of tetracycline (against IS-58 strain) by up to 128-fold. This likely indicates that they can act as putative inhibitors of bacterial efflux pumps. These results reinforce organotin(IV) complexes as promising antibacterial agents, and many of these complexes, if associated with antibiotics, can act as potential adjuvant antibiotic candidates.
MeSH term(s)	Animals ; Anti-Bacterial Agents/chemical synthesis ; Anti-Bacterial Agents/chemistry ; Anti-Bacterial Agents/pharmacology ; Cell Line ; Mice ; Microbial Sensitivity Tests ; Organotin Compounds/chemical synthesis ; Organotin Compounds/chemistry ; Organotin Compounds/pharmacology ; Staphylococcus aureus/drug effects ; Tetracyclines/pharmacology
Chemical Substances	Anti-Bacterial Agents ; Organotin Compounds ; Tetracyclines
Language	English
Publishing date	2017-12-08
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	162843-4
ISSN	1873-3344 ; 0162-0134
ISSN (online)	1873-3344
ISSN	0162-0134
DOI	10.1016/j.jinorgbio.2017.12.004
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Article ; Online: Usual normalization strategies for gene expression studies impair the detection and analysis of circadian patterns.

Figueredo, Diego de Siqueira / Barbosa, Mayara Rodrigues / Coimbra, Daniel Gomes / Dos Santos, José Luiz Araújo / Costa, Ellyda Fernanda Lopes / Koike, Bruna Del Vechio / Alexandre Moreira, Magna Suzana / de Andrade, Tiago Gomes

Chronobiology international

2017 Volume 35, Issue 3, Page(s) 378–391

Abstract: Recent studies have shown that transcriptomes from different tissues present circadian oscillations. Therefore, the endogenous variation of total RNA should be considered as a potential bias in circadian studies of gene expression. However, normalization ...

Abstract	Recent studies have shown that transcriptomes from different tissues present circadian oscillations. Therefore, the endogenous variation of total RNA should be considered as a potential bias in circadian studies of gene expression. However, normalization strategies generally include the equalization of total RNA concentration between samples prior to cDNA synthesis. Moreover, endogenous housekeeping genes (HKGs) frequently used for data normalization may exhibit circadian variation and distort experimental results if not detected or considered. In this study, we controlled experimental conditions from the amount of initial brain tissue samples through extraction steps, cDNA synthesis, and quantitative real time PCR (qPCR) to demonstrate a circadian oscillation of total RNA concentration. We also identified that the normalization of the RNA's yield affected the rhythmic profiles of different genes, including Per1-2 and Bmal1. Five widely used HKGs (Actb, Eif2a, Gapdh, Hprt1, and B2m) also presented rhythmic variations not detected by geNorm algorithm. In addition, the analysis of exogenous microRNAs (Cel-miR-54 and Cel-miR-39) spiked during RNA extraction suggests that the yield was affected by total RNA concentration, which may impact circadian studies of small RNAs. The results indicate that the approach of tissue normalization without total RNA equalization prior to cDNA synthesis can avoid bias from endogenous broad variations in transcript levels. Also, the circadian analysis of 2
MeSH term(s)	Algorithms ; Animals ; Brain/metabolism ; Circadian Rhythm ; DNA Primers ; Gene Expression Profiling/methods ; Gene Expression Regulation ; Genes, Essential ; Mice ; Mice, Inbred C57BL ; RNA, Messenger/genetics ; Real-Time Polymerase Chain Reaction ; Time Factors ; Transcriptome
Chemical Substances	DNA Primers ; RNA, Messenger
Language	English
Publishing date	2017-12-08
Publishing country	England
Document type	Journal Article
ZDB-ID	998996-1
ISSN	1525-6073 ; 0742-0528
ISSN (online)	1525-6073
ISSN	0742-0528
DOI	10.1080/07420528.2017.1410168
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Article ; Online: CoGA: An R Package to Identify Differentially Co-Expressed Gene Sets by Analyzing the Graph Spectra.

Santos, Suzana de Siqueira / Galatro, Thais Fernanda de Almeida / Watanabe, Rodrigo Akira / Oba-Shinjo, Sueli Mieko / Nagahashi Marie, Suely Kazue / Fujita, André

PloS one

2015 Volume 10, Issue 8, Page(s) e0135831

Abstract: Gene set analysis aims to identify predefined sets of functionally related genes that are differentially expressed between two conditions. Although gene set analysis has been very successful, by incorporating biological knowledge about the gene sets and ... ...

Abstract	Gene set analysis aims to identify predefined sets of functionally related genes that are differentially expressed between two conditions. Although gene set analysis has been very successful, by incorporating biological knowledge about the gene sets and enhancing statistical power over gene-by-gene analyses, it does not take into account the correlation (association) structure among the genes. In this work, we present CoGA (Co-expression Graph Analyzer), an R package for the identification of groups of differentially associated genes between two phenotypes. The analysis is based on concepts of Information Theory applied to the spectral distributions of the gene co-expression graphs, such as the spectral entropy to measure the randomness of a graph structure and the Jensen-Shannon divergence to discriminate classes of graphs. The package also includes common measures to compare gene co-expression networks in terms of their structural properties, such as centrality, degree distribution, shortest path length, and clustering coefficient. Besides the structural analyses, CoGA also includes graphical interfaces for visual inspection of the networks, ranking of genes according to their "importance" in the network, and the standard differential expression analysis. We show by both simulation experiments and analyses of real data that the statistical tests performed by CoGA indeed control the rate of false positives and is able to identify differentially co-expressed genes that other methods failed.
MeSH term(s)	Algorithms ; Biomarkers, Tumor/genetics ; Brain Neoplasms/genetics ; Computational Biology/methods ; Computer Graphics ; Gene Expression Profiling ; Gene Expression Regulation ; Gene Regulatory Networks ; Humans ; Models, Biological ; Oligonucleotide Array Sequence Analysis/methods
Chemical Substances	Biomarkers, Tumor
Language	English
Publishing date	2015-08-27
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	2267670-3
ISSN	1932-6203 ; 1932-6203
ISSN (online)	1932-6203
ISSN	1932-6203
DOI	10.1371/journal.pone.0135831
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Article: Metabolic Syndrome: Identifying risk factors in climacteric women

Silvan Márcio de Oliveira / Ronilson Ferreira Freitas / Maria Suzana Marques / Fernanda Paluszkiewicz Dullius / Vivianne Margareth Chaves Pereira Reis / Marcelo Eustáquio de Siqueira e Rocha / Josiane Santos Brant Rocha

Revista brasileira de obesidade, nutrição e emagrecimento. 2018 Nov., v. 12, no. 74

2018

Abstract: ... Síndrome metabólica: identificando fatores de risco em mulheres climatéricas Objetivo: Identificar ... a associação da Síndrome Metabólica (SM) e fatores sociodemográficos, hábitos de vida, hábitos alimentares ... medidas antropométricas e fatores clínicos de mulheres climatéricas atendidas na atenção básica. Métodos ...

Abstract	Objective: To identify the association of Metabolic Syndrome (MS) and sociodemographic factors, life habits, eating habits, anthropometric measures and clinical factors of climacteric women assisted in primary care. Methods: Cross-sectional and analytical epidemiological study, with a sample composed of 874 climacteric women selected by means of a simple random sampling. The evaluation of the MS was performed according to National Cholesterol Education Program Adult Treatment Panel III. We used the statistical analysis by the chi-square test, considering p <0.05. Results: The characterization of variables related to the Metabolic Syndrome reported that most women had MS (56.8%). There were significant associations of MS with age (p= 0.004), schooling (p= 0.015), paid activity outside the home (p = 0.050), smoking (p = 0.016), salt usage in food (p= 0.021), fruit ingestion (p= 0.009) and body mass index (p=0.000). Conclusiones: It was possible to observe a high prevalence of MS in the studied population. MS was associated with sociodemographic factors, life habits, eating habits, anthropometric measures, clinical and obstetric factors. RESUMO Síndrome metabólica: identificando fatores de risco em mulheres climatéricas Objetivo: Identificar a associação da Síndrome Metabólica (SM) e fatores sociodemográficos, hábitos de vida, hábitos alimentares, medidas antropométricas e fatores clínicos de mulheres climatéricas atendidas na atenção básica. Métodos: Estudo epidemiológico transversal e analítico, com amostra composta por 874 mulheres climatéricas selecionadas por meio de amostragem aleatória simples. A avaliação do SM foi realizada de acordo com o National Child Prolide Education Programme Adult Treatment Panel III. Utilizou-se a análise estatística pelo teste do qui-quadrado, considerando p <0,05. Resultados: A caracterização das variáveis relacionadas à Síndrome Metabólica relatou que a maioria das mulheres apresentava SM (56,8%). Houve associações significativas da SM com a idade (p = 0,004), escolaridade (p = 0,015), atividade remunerada fora de casa (p = 0,050), tabagismo (p = 0,016), uso de sal nos alimentos (p = 0,021) ingestão (p = 0,009) e índice de massa corporal (p = 0,000). Conclusão: Foi possível observar uma alta prevalência de SM na população estudada, alimentares, medidas antropométricas, fatores clínicos e obstétricos.
Keywords	National Cholesterol Education Program ; adults ; body mass index ; chi-square distribution ; children ; climacteric fruits ; education programs ; epidemiological studies ; ingestion ; metabolic syndrome
Language	English
Dates of publication	2018-11
Size	p. 776-785.
Publishing place	Instituto Brasileiro de Pesquisa e Ensino em Fisiologia do Exercício
Document type	Article
ZDB-ID	2829266-2
ISSN	1981-9919
ISSN	1981-9919
Database	NAL-Catalogue (AGRICOLA)

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Article: Physicochemical and in vitro biological evaluations of furazolidone-based β-cyclodextrin complexes in Leishmania amazonensis

Carvalho, Suzana Gonçalves / Ana Paula dos Santos Matos / Carla Holandino Quaresma / Janaina Cecília Oliveira Villanova / Juliana Aparecida Severi / Larissa Ataíde Siqueira / Luisa Mota da Silva / Marcos Santos Zanini / Sérgio Faloni de Andrade

Research in veterinary science. 2018 Aug., v. 119

2018

Abstract	Recently, there have been numerous cases of leishmaniasis reported in different Brazilian states. The use of furazolidone (FZD) to treat leishmaniasis has been previously described; however, the drug is associated with adverse effects such as anorexia, weight loss, incoordination, and fatigue in dogs. Thus, in the present study, we prepared and evaluated inclusion complexes between FZD and β-cyclodextrin (β-CD) to guarantee increased drug solubility and reduce the toxicity associated with high doses. The FZD:β-CD complexes were prepared by two different techniques (kneading and lyophilization) prior to incorporation in an oral pharmaceutical dosage form. Formation of the complexes was confirmed using appropriate physicochemical methods. Antileishmanial activity against L. amazonensis was tested in vitro via a microplate assay using resazurin dye and cytotoxicity was determined using the fibroblast L929 lineage. Solubility studies showed the formation of complexes with complexation efficiencies lower than 100%. Physicochemical analysis revealed that FZD was inserted into the β-CD cavity after complexation by both methods. Biological in vitro evaluations demonstrated that free FZD and the FZD:β-CD complexes presented significant leishmanicidal activity against L. amazonensis with IC50 values of 6.16 μg/mL and 1.83 μg/mL for the complexes prepared by kneading and lyophilization, respectively. The data showed that these complexes reduced the survival of promastigotes and presented no toxicity for tested cells. Our results indicate that the new compounds could be a cost-effective alternative for use in the pharmacotherapy of leishmaniasis in dogs infected with L. amazonensis.
Keywords	antileishmanial properties ; beta-cyclodextrin ; cost effectiveness ; cytotoxicity ; dogs ; drug formulations ; drugs ; fibroblasts ; freeze drying ; furazolidone ; in vitro studies ; inhibitory concentration 50 ; kneading ; Leishmania amazonensis ; leishmaniasis ; promastigotes ; solubility
Language	English
Dates of publication	2018-08
Size	p. 143-153.
Publishing place	Elsevier Ltd
Document type	Article
ZDB-ID	840961-4
ISSN	1532-2661 ; 0034-5288
ISSN (online)	1532-2661
ISSN	0034-5288
DOI	10.1016/j.rvsc.2018.06.013
Database	NAL-Catalogue (AGRICOLA)

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Article ; Online: Machine learning and network medicine approaches for drug repositioning for COVID-19.

Santos, Suzana de Siqueira / Torres, Mateo / Galeano, Diego / Sánchez, María Del Mar / Cernuzzi, Luca / Paccanaro, Alberto

Patterns (New York, N.Y.)

2021 Volume 3, Issue 1, Page(s) 100396

Abstract: We present two machine learning approaches for drug repurposing. While we have developed them for COVID-19, they are disease-agnostic. The two methodologies are complementary, targeting SARS-CoV-2 and host factors, respectively. Our first approach ... ...

Abstract	We present two machine learning approaches for drug repurposing. While we have developed them for COVID-19, they are disease-agnostic. The two methodologies are complementary, targeting SARS-CoV-2 and host factors, respectively. Our first approach consists of a matrix factorization algorithm to rank broad-spectrum antivirals. Our second approach, based on network medicine, uses graph kernels to rank drugs according to the perturbation they induce on a subnetwork of the human interactome that is crucial for SARS-CoV-2 infection/replication. Our experiments show that our top predicted broad-spectrum antivirals include drugs indicated for compassionate use in COVID-19 patients; and that the ranking obtained by our kernel-based approach aligns with experimental data. Finally, we present the COVID-19 repositioning explorer (CoREx), an interactive online tool to explore the interplay between drugs and SARS-CoV-2 host proteins in the context of biological networks, protein function, drug clinical use, and Connectivity Map. CoREx is freely available at: https://paccanarolab.org/corex/.
Language	English
Publishing date	2021-11-09
Publishing country	United States
Document type	Journal Article
ISSN	2666-3899
ISSN (online)	2666-3899
DOI	10.1016/j.patter.2021.100396
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Article: BioNetStat: A Tool for Biological Networks Differential Analysis.

Jardim, Vinícius Carvalho / Santos, Suzana de Siqueira / Fujita, Andre / Buckeridge, Marcos Silveira

Frontiers in genetics

2019 Volume 10, Page(s) 594

Abstract: The study of interactions among biological components can be carried out by using methods grounded on network theory. Most of these methods focus on the comparison of two biological networks (e.g., control vs. disease). However, biological systems often ... ...

Abstract	The study of interactions among biological components can be carried out by using methods grounded on network theory. Most of these methods focus on the comparison of two biological networks (e.g., control vs. disease). However, biological systems often present more than two biological states (e.g., tumor grades). To compare two or more networks simultaneously, we developed BioNetStat, a Bioconductor package with a user-friendly graphical interface. BioNetStat compares correlation networks based on the probability distribution of a feature of the graph (e.g., centrality measures). The analysis of the structural alterations on the network reveals significant modifications in the system. For example, the analysis of centrality measures provides information about how the relevance of the nodes changes among the biological states. We evaluated the performance of BioNetStat in both, toy models and two case studies. The latter related to gene expression of tumor cells and plant metabolism. Results based on simulated scenarios suggest that the statistical power of BioNetStat is less sensitive to the increase of the number of networks than Gene Set Coexpression Analysis (GSCA). Also, besides being able to identify nodes with modified centralities, BioNetStat identified altered networks associated with signaling pathways that were not identified by other methods.
Language	English
Publishing date	2019-06-21
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	2606823-0
ISSN	1664-8021
ISSN	1664-8021
DOI	10.3389/fgene.2019.00594
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Article ; Online: Clinical Features of COVID-19 on Patients With Neuromyelitis Optica Spectrum Disorders.

Apostolos-Pereira, Samira Luisa / Campos Ferreira, Lis / Boaventura, Mateus / de Carvalho Sousa, Nise Alessandra / Joca Martins, Gabriela / d'Almeida, José Arthur / Pitombeira, Milena / Silvestre Mendes, Lucas / Fukuda, Thiago / Souza Cabeça, Hideraldo Luíz / Chaves Rocha, Luciano / Santos de Oliveira, Bianca / Vieira Stella, Carla Renata / Lobato de Oliveira, Enedina Maria / de Souza Amorim, Leizian / Ferrari de Castro, Andréa / Pereira Gomes Neto, Antonio / Diogo Silva, Guilherme / Bueno, Lucas /

de Morais Machado, Maria / Castello Dias-Carneiro, Rafael / Maciel Dias, Ronaldo / Porto Moreira, Alvaro / Piccolo, Ana / Kuntz Grzesiuk, Anderson / Muniz, Andre / Diniz Disserol, Caio / Ferreira Vasconcelos, Claudia / Kaimen-Maciel, Damacio / Sisterolli Diniz, Denise / Comini-Frota, Elizabeth / Coronetti Rocha, Fernando / Cruz Dos Santos, Gutemberg Augusto / Dadalti Fragoso, Yara / Sciascia do Olival, Guilherme / Ruocco, Heloisa Helena / Siqueira, Heloise Helena / Sato, Henry Koity / Figueiredo, José Alexandre / Cortoni Calia, Leandro / Teixeira Dourado, Mario Emilio / Scolari, Letícia / Ribeiro Soares Neto, Herval / Melges, Luiz / Magno Gonçalves, Marcus Vinicius / Vellutini Pimentel, Maria Lucia / de Castro Ribeiro, Marlise / Gurrola Arambula, Omar / Diniz da Gama, Paulo / Leite Menon, Renata / Barbosa Thomaz, Rodrigo / de Rizo Morales, Rogério / Sobreira, Silvana / Machado, Suzana Nunes / Gonsalves Jubé Ribeiro, Taysa / Coelho Santa Rita Pereira, Valéria / Maia Costa, Vanessa / da Nóbrega Junior, Adaucto Wanderley / Vieira Alves-Leon, Soniza / Mamprim de Morais Perin, Marilia / Donadi, Eduardo / Adoni, Tarso / Gomes, Sidney / Brito Ferreira, Maria / Callegaro, Dagoberto / Mendes, Maria Fernanda / Brum, Doralina / von Glehn, Felipe

Neurology(R) neuroimmunology & neuroinflammation

2021 Volume 8, Issue 6

Abstract: Background and objectives: To describe the clinical features and disease outcomes of coronavirus disease 2019 (COVID-19) in patients with neuromyelitis optica spectrum disorder (NMOSD).: Methods: The Neuroimmunology Brazilian Study Group has set up ... ...

Abstract	Background and objectives: To describe the clinical features and disease outcomes of coronavirus disease 2019 (COVID-19) in patients with neuromyelitis optica spectrum disorder (NMOSD). Methods: The Neuroimmunology Brazilian Study Group has set up the report of severe acute respiratory syndrome (SARS-CoV2) cases in patients with NMOSD (pwNMOSD) using a designed web-based case report form. All neuroimmunology outpatient centers and individual neurologists were invited to register their patients across the country. Data collected between March 19 and July 25, 2020, were uploaded at the REDONE.br platform. Inclusion criteria were as follows: (1) NMOSD diagnosis according to the 2015 International Panel Criteria and (2) confirmed SARS-CoV2 infection (reverse transcription-polymerase chain reaction or serology) or clinical suspicion of COVID-19, diagnosed according to Center for Disease Control / Council of State and Territorial Epidemiologists (CDC/CSTE) case definition. Demographic and NMOSD-related clinical data, comorbidities, disease-modifying therapy (DMT), COVID-19 clinical features, and severity were described. Results: Among the 2,061 pwNMOSD followed up by Brazilian neurologists involved on the registry of COVID-19 in pwNMOSD at the REDONE.br platform, 34 patients (29 women) aged 37 years (range 8-77), with disease onset at 31 years (range 4-69) and disease duration of 6 years (range 0.2-20.5), developed COVID-19 (18 confirmed and 16 probable cases). Most patients exhibited mild disease, being treated at home (77%); 4 patients required admission at intensive care units (severe cases); and 1 patient died. Five of 34 (15%) presented neurologic manifestations (relapse or pseudoexacerbation) during or after SARS-CoV2 infection. Discussion: Most NMOSD patients with COVID-19 presented mild disease forms. However, pwNMOSD had much higher odds of hospitalization and intensive care unit admission comparing with the general Brazilian population. The frequency of death was not clearly different. NMOSD disability, DMT type, and comorbidities were not associated with COVID-19 outcome. SARS-CoV2 infection was demonstrated as a risk factor for NMOSD relapses. Collaborative studies using shared NMOSD data are needed to suitably define factors related to COVID-19 severity and neurologic manifestations.
MeSH term(s)	Adolescent ; Adult ; Aged ; Brazil/epidemiology ; COVID-19/epidemiology ; COVID-19/physiopathology ; COVID-19/therapy ; Child ; Disease Progression ; Female ; Hospitalization/statistics & numerical data ; Humans ; Immunosuppressive Agents/therapeutic use ; Intensive Care Units/statistics & numerical data ; Male ; Middle Aged ; Neuromyelitis Optica/drug therapy ; Neuromyelitis Optica/epidemiology ; Neuromyelitis Optica/physiopathology ; Recurrence ; SARS-CoV-2 ; Severity of Illness Index ; Young Adult
Chemical Substances	Immunosuppressive Agents
Language	English
Publishing date	2021-08-26
Publishing country	United States
Document type	Journal Article ; Observational Study ; Research Support, Non-U.S. Gov't
ZDB-ID	2767740-0
ISSN	2332-7812 ; 2332-7812
ISSN (online)	2332-7812
ISSN	2332-7812
DOI	10.1212/NXI.0000000000001060
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Article ; Online: CoGA

Suzana de Siqueira Santos / Thais Fernanda de Almeida Galatro / Rodrigo Akira Watanabe / Sueli Mieko Oba-Shinjo / Suely Kazue Nagahashi Marie / André Fujita

PLoS ONE, Vol 10, Iss 8, p e

An R Package to Identify Differentially Co-Expressed Gene Sets by Analyzing the Graph Spectra.

2015 Volume 0135831

Abstract	Gene set analysis aims to identify predefined sets of functionally related genes that are differentially expressed between two conditions. Although gene set analysis has been very successful, by incorporating biological knowledge about the gene sets and enhancing statistical power over gene-by-gene analyses, it does not take into account the correlation (association) structure among the genes. In this work, we present CoGA (Co-expression Graph Analyzer), an R package for the identification of groups of differentially associated genes between two phenotypes. The analysis is based on concepts of Information Theory applied to the spectral distributions of the gene co-expression graphs, such as the spectral entropy to measure the randomness of a graph structure and the Jensen-Shannon divergence to discriminate classes of graphs. The package also includes common measures to compare gene co-expression networks in terms of their structural properties, such as centrality, degree distribution, shortest path length, and clustering coefficient. Besides the structural analyses, CoGA also includes graphical interfaces for visual inspection of the networks, ranking of genes according to their "importance" in the network, and the standard differential expression analysis. We show by both simulation experiments and analyses of real data that the statistical tests performed by CoGA indeed control the rate of false positives and is able to identify differentially co-expressed genes that other methods failed.
Keywords	Medicine ; R ; Science ; Q
Subject code	612
Language	English
Publishing date	2015-01-01T00:00:00Z
Publisher	Public Library of Science (PLoS)
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Inter-library loan at ZB MED

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Kategorien

Order via subito

More links

Kategorien

Order via subito

Full text online

More links

Kategorien

Inter-library loan at ZB MED