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Article: Traumatic ulcerative granuloma with stromal eosinophilia mimicking a squamous cell carcinoma.

Bordignon, Natália-Cristina-Trentin / Correia-Neto, Ivan-José / Gondak, Rogério / de Albuquerque-Júnior, Ricardo-Luiz-Cavalcanti

Journal of clinical and experimental dentistry

2024 Volume 16, Issue 3, Page(s) e377–e382

Abstract: Traumatic ulcerative granuloma with stromal eosinophilia (TUGSE) is a rare lesion of a traumatic-reactive nature of the oral mucosa that can clinically mimic an oral carcinoma. A 59-year-old male patient presented painful ulceration with indurated ... ...

Abstract	Traumatic ulcerative granuloma with stromal eosinophilia (TUGSE) is a rare lesion of a traumatic-reactive nature of the oral mucosa that can clinically mimic an oral carcinoma. A 59-year-old male patient presented painful ulceration with indurated margins on the base of the tongue, extending to the floor of the mouth. The use of ill-fitting denture hurting the mucosa of the region was reported by the patient. The evolution time was 45 days. The presumptive diagnoses were oral squamous cell carcinoma and chronic ulcer. An incisional biopsy revealed an ulceration associated with an eosinophil-rich inflammatory infiltrate and a bed of proliferating histiocyte-like cells in either diffuse or fasciculate arrangement. There was diffuse immunopositivity for CD3, but focal for CD68 and α-SMA, and negativity for CD30. The final diagnosis was TUGSE. The use of the ill-fitting dental prosthesis was suspended and the lesion had complete spontaneous remission three weeks later. TUGSE is an uncommon traumatic self-limiting lesion that must be included in the differential diagnosis of ulcerative lesions resembling oral cancer. The correlation of clinical and histopathological findings is pivotal for a proper diagnosis, avoiding unnecessary aggressive surgical approaches.
Language	English
Publishing date	2024-03-01
Publishing country	Spain
Document type	Case Reports
ZDB-ID	2586647-3
ISSN	1989-5488
ISSN	1989-5488
DOI	10.4317/jced.61322
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Article ; Online: Antiviral Drug Discovery for the Treatment of COVID-19 Infections.

Ng, Teresa I / Correia, Ivan / Seagal, Jane / DeGoey, David A / Schrimpf, Michael R / Hardee, David J / Noey, Elizabeth L / Kati, Warren M

Viruses

2022 Volume 14, Issue 5

Abstract: The coronavirus disease 2019 (COVID-19) pandemic is caused by the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), a recently emerged human coronavirus. COVID-19 vaccines have proven to be successful in protecting the vaccinated from ... ...

Abstract	The coronavirus disease 2019 (COVID-19) pandemic is caused by the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), a recently emerged human coronavirus. COVID-19 vaccines have proven to be successful in protecting the vaccinated from infection, reducing the severity of disease, and deterring the transmission of infection. However, COVID-19 vaccination faces many challenges, such as the decline in vaccine-induced immunity over time, and the decrease in potency against some SARS-CoV-2 variants including the recently emerged Omicron variant, resulting in breakthrough infections. The challenges that COVID-19 vaccination is facing highlight the importance of the discovery of antivirals to serve as another means to tackle the pandemic. To date, neutralizing antibodies that block viral entry by targeting the viral spike protein make up the largest class of antivirals that has received US FDA emergency use authorization (EUA) for COVID-19 treatment. In addition to the spike protein, other key targets for the discovery of direct-acting antivirals include viral enzymes that are essential for SARS-CoV-2 replication, such as RNA-dependent RNA polymerase and proteases, as judged by US FDA approval for remdesivir, and EUA for Paxlovid (nirmatrelvir + ritonavir) for treating COVID-19 infections. This review presents an overview of the current status and future direction of antiviral drug discovery for treating SARS-CoV-2 infections, covering important antiviral targets such as the viral spike protein, non-structural protein (nsp) 3 papain-like protease, nsp5 main protease, and the nsp12/nsp7/nsp8 RNA-dependent RNA polymerase complex.
MeSH term(s)	Antiviral Agents/pharmacology ; COVID-19/drug therapy ; COVID-19 Vaccines ; Coronavirus 3C Proteases/antagonists & inhibitors ; Drug Discovery ; Humans ; RNA-Dependent RNA Polymerase/antagonists & inhibitors ; SARS-CoV-2 ; Spike Glycoprotein, Coronavirus/antagonists & inhibitors ; Viral Proteins/metabolism
Chemical Substances	Antiviral Agents ; COVID-19 Vaccines ; Spike Glycoprotein, Coronavirus ; Viral Proteins ; spike protein, SARS-CoV-2 ; RNA-Dependent RNA Polymerase (EC 2.7.7.48) ; 3C-like proteinase, SARS-CoV-2 (EC 3.4.22.-) ; Coronavirus 3C Proteases (EC 3.4.22.28)
Language	English
Publishing date	2022-05-04
Publishing country	Switzerland
Document type	Journal Article ; Review ; Research Support, Non-U.S. Gov't
ZDB-ID	2516098-9
ISSN	1999-4915 ; 1999-4915
ISSN (online)	1999-4915
ISSN	1999-4915
DOI	10.3390/v14050961
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Article ; Online: Stability of IgG isotypes in serum.

Correia, Ivan R

mAbs

2010 Volume 2, Issue 3, Page(s) 221–232

Abstract: Drug development from early discovery to late stage commercialization is a long arduous process where a number of factors are taken into consideration when deciding on a particular immunoglobulin isotype for a therapeutic purpose. There are no general ... ...

Abstract	Drug development from early discovery to late stage commercialization is a long arduous process where a number of factors are taken into consideration when deciding on a particular immunoglobulin isotype for a therapeutic purpose. There are no general rules for which isotype is selected; however, prior experiences, effector function and the specific therapy targeted, as well as extensive testing early in development help in pairing the number of candidates. Over 20 monoclonal antibodies are FDA-approved, and most are IgG1 isotype, although a number of non-IgG1 molecules have been approved recently and the number in development is on the rise. Analytical techniques that examine the physicochemical properties of a molecule provide vital information on the stability and efficacy of candidate antibody therapeutics, but most of these studies are conducted using standard buffers and under well defined storage conditions. It has recently become apparent that analysis of antibody therapeutics recovered after circulation in blood show altered physicochemical characteristics, and in many instances therapeutic molecules recovered from serum show lower potency. This review examines some of these studies, with a focus on the physicochemical changes observed in the molecules. Technologies that can facilitate rapid screening of candidate antibody therapeutics directly from blood are highlighted. The facts indicate that antibody therapeutic development programs must incorporate understanding of the basic biology of the isotype and its stability in serum, which is the intended environment of the therapeutic.
MeSH term(s)	Animals ; Antibodies, Monoclonal/blood ; Antibodies, Monoclonal/chemistry ; Antibodies, Monoclonal/pharmacokinetics ; Drug Design ; Humans ; Immunoglobulin G/blood ; Immunoglobulin G/chemistry ; Immunoglobulin G/metabolism ; Immunoglobulin Isotypes/blood ; Immunoglobulin Isotypes/chemistry ; Immunoglobulin Isotypes/metabolism ; Protein Stability
Chemical Substances	Antibodies, Monoclonal ; Immunoglobulin G ; Immunoglobulin Isotypes
Language	English
Publishing date	2010-05-16
Publishing country	United States
Document type	Journal Article ; Review
ZDB-ID	2537838-7
ISSN	1942-0870 ; 1942-0870
ISSN (online)	1942-0870
ISSN	1942-0870
DOI	10.4161/mabs.2.3.11788
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Article: COVID-19 lockdowns increase public interest in urban nature.

Roll, Uri / Jarić, Ivan / Jepson, Paul / da Costa-Pinto, Anna L / Pinheiro, Barbara R / Correia, Ricardo A / Malhado, Ana Cm / Ladle, Richard J

Frontiers in ecology and the environment

2021 Volume 19, Issue 6, Page(s) 320–322

Language	English
Publishing date	2021-08-02
Publishing country	United States
Document type	Journal Article
ZDB-ID	2110853-5
ISSN	1540-9309 ; 1540-9295
ISSN (online)	1540-9309
ISSN	1540-9295
DOI	10.1002/fee.2374
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Article ; Online: Evaluating global interest in biodiversity and conservation.

de Oliveira Caetano, Gabriel Henrique / Vardi, Reut / Jarić, Ivan / Correia, Ricardo A / Roll, Uri / Veríssimo, Diogo

Conservation biology : the journal of the Society for Conservation Biology

2023 Volume 37, Issue 5, Page(s) e14100

Abstract: The first target of the Convention for Biological Diversity (Aichi target 1) was to increase public awareness of the values of biodiversity and actions needed to conserve it-a key prerequisite for other conservation targets. Monitoring success in ... ...

Abstract	The first target of the Convention for Biological Diversity (Aichi target 1) was to increase public awareness of the values of biodiversity and actions needed to conserve it-a key prerequisite for other conservation targets. Monitoring success in achieving this target at a global scale has been difficult; however, increased digitization of human life in recent decades has made it easier to measure people's interests at an unprecedented scale and allows for a more comprehensive evaluation of Aichi target 1 than previously attempted. We used Google search volume data for over a thousand search terms related to different aspects of biodiversity and conservation to evaluate global interest in biodiversity and its conservation. We also investigated the correlation of interest in biodiversity and conservation across countries to variables related to biodiversity, economy, demography, research, education, internet use, and presence of environmental organizations. From 2013 to 2020, global searches for biodiversity components increased, driven mostly by searches for charismatic fauna (59% of searches were for mammal species). Searches for conservation actions, driven mostly by searches for national parks, decreased since 2019, likely due to the COVID-19 pandemic. Economic inequality was negatively correlated with interest in biodiversity and conservation, whereas purchasing power was indirectly positively correlated with higher levels of education and research. Our results suggest partial success toward achieving Aichi target 1 in that interest in biodiversity increased widely, but not for conservation. We suggest that increased outreach and education efforts aimed at neglected aspects of biodiversity and conservation are still needed. Popular topics in biodiversity and conservation could be leveraged to increase awareness of other topics with attention to local socioeconomic contexts.
MeSH term(s)	Animals ; Humans ; Pandemics ; Conservation of Natural Resources/methods ; COVID-19 ; Biodiversity ; Mammals
Language	English
Publishing date	2023-06-09
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	58735-7
ISSN	1523-1739 ; 0888-8892
ISSN (online)	1523-1739
ISSN	0888-8892
DOI	10.1111/cobi.14100
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Article ; Online: Selective Suppression of Cellular Immunity and Increased Cytotoxicity in Skin Lesions of Disseminated Leishmaniasis Uncovered by Transcriptome-Wide Analysis.

Ramos, Pablo Ivan Pereira / Cristal, Juqueline Rocha / Khouri, Ricardo / Boaventura, Viviane / Azevedo, Lucas Gentil / Correia, Thaizza Cavalcante / Sharma, Rohit / Cardoso, Cristina R de Barros / Pinzan, Camila Figueiredo / de Noronha, Almério Libório Lopes / Van Weyenbergh, Johan / Queiroz, Artur Trancoso Lopo de / de Oliveira, Camila I / Barral-Netto, Manoel / Barral, Aldina

The Journal of investigative dermatology

2021 Volume 141, Issue 10, Page(s) 2542–2546.e5

MeSH term(s)	Humans ; Immunity, Cellular ; Leishmaniasis, Cutaneous/immunology ; Leishmaniasis, Cutaneous/pathology ; Skin/pathology ; Th1 Cells/immunology ; Th2 Cells/immunology ; Transcriptome
Language	English
Publishing date	2021-04-03
Publishing country	United States
Document type	Letter ; Research Support, Non-U.S. Gov't
ZDB-ID	80136-7
ISSN	1523-1747 ; 0022-202X
ISSN (online)	1523-1747
ISSN	0022-202X
DOI	10.1016/j.jid.2021.03.017
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Article ; Online: Harnessing online digital data in biodiversity monitoring.

Soriano-Redondo, Andrea / Correia, Ricardo A / Barve, Vijay / Brooks, Thomas M / Butchart, Stuart H M / Jarić, Ivan / Kulkarni, Ritwik / Ladle, Richard J / Vaz, Ana Sofia / Di Minin, Enrico

PLoS biology

2024 Volume 22, Issue 2, Page(s) e3002497

Abstract: Online digital data from media platforms have the potential to complement biodiversity monitoring efforts. We propose a strategy for integrating these data into current biodiversity datasets in light of the Kunming-Montreal Global Biodiversity Framework. ...

Abstract	Online digital data from media platforms have the potential to complement biodiversity monitoring efforts. We propose a strategy for integrating these data into current biodiversity datasets in light of the Kunming-Montreal Global Biodiversity Framework.
MeSH term(s)	Biodiversity ; Conservation of Natural Resources
Language	English
Publishing date	2024-02-15
Publishing country	United States
Document type	Journal Article
ZDB-ID	2126776-5
ISSN	1545-7885 ; 1544-9173
ISSN (online)	1545-7885
ISSN	1544-9173
DOI	10.1371/journal.pbio.3002497
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Article ; Online: Scaffolding protein functional sites using deep learning.

Science (New York, N.Y.)

2022 Volume 377, Issue 6604, Page(s) 387–394

Abstract: The binding and catalytic functions of proteins are generally mediated by a small number of functional residues held in place by the overall protein structure. Here, we describe deep learning approaches for scaffolding such functional sites without ... ...

Abstract	The binding and catalytic functions of proteins are generally mediated by a small number of functional residues held in place by the overall protein structure. Here, we describe deep learning approaches for scaffolding such functional sites without needing to prespecify the fold or secondary structure of the scaffold. The first approach, "constrained hallucination," optimizes sequences such that their predicted structures contain the desired functional site. The second approach, "inpainting," starts from the functional site and fills in additional sequence and structure to create a viable protein scaffold in a single forward pass through a specifically trained RoseTTAFold network. We use these two methods to design candidate immunogens, receptor traps, metalloproteins, enzymes, and protein-binding proteins and validate the designs using a combination of in silico and experimental tests.
MeSH term(s)	Binding Sites ; Catalysis ; Deep Learning ; Protein Binding ; Protein Engineering/methods ; Protein Folding ; Protein Structure, Secondary ; Proteins/chemistry
Chemical Substances	Proteins
Language	English
Publishing date	2022-07-21
Publishing country	United States
Document type	Journal Article
ZDB-ID	128410-1
ISSN	1095-9203 ; 0036-8075
ISSN (online)	1095-9203
ISSN	0036-8075
DOI	10.1126/science.abn2100
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Article ; Online: Gene expression patterns of in vivo-derived sheep blastocysts is more affected by vitrification than slow freezing technique.

Brair, Viviane L / Maia, Ana Lucia R S / Correia, Lucas Francisco L / Barbosa, Nathalia O / Santos, Juliana D R / Brandão, Felipe Z / Fonseca, Jeferson F / Batista, Ribrio Ivan T P / Souza-Fabjan, Joanna M G

Cryobiology

2020 Volume 95, Page(s) 110–115

Abstract: Transfer of fresh sheep embryos frequently results in higher pregnancy rate compared to cryopreserved ones, possibly due to a failure in the communication between the cryopreserved embryo and the endometrium during pre-implantation and pregnancy ... ...

Abstract	Transfer of fresh sheep embryos frequently results in higher pregnancy rate compared to cryopreserved ones, possibly due to a failure in the communication between the cryopreserved embryo and the endometrium during pre-implantation and pregnancy establishment. Thus, this study assessed the effect of sheep embryo cryopreservation (slow freezing or vitrification) on embryo survival rate and expression of genes related to trophectoderm differentiation (CDX2), pluripotency maintenance (NANOG), cell proliferation (TGFB1), mitochondrial activity (NRF1) and apoptosis (BAX and BCL2). Superovulation (n = 32 ewes) was performed and embryos were transcervically collected. One hundred good quality (Grade I and II) embryos were allocated into three groups: fresh embryos (CTL; n = 15), slow freezing (SF; n = 42) or vitrification (VT; n = 43). After thawing/warming, three pools of five blastocysts per group were used for RT-qPCR; the remaining 55 embryos were cultured in vitro in SOFaa medium at 38.5 °C and 5% CO
MeSH term(s)	Animals ; Blastocyst ; Cryopreservation/methods ; Embryo Transfer ; Female ; Freezing ; Gene Expression ; Pregnancy ; Sheep ; Vitrification
Language	English
Publishing date	2020-06-15
Publishing country	Netherlands
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	80098-3
ISSN	1090-2392 ; 0011-2240
ISSN (online)	1090-2392
ISSN	0011-2240
DOI	10.1016/j.cryobiol.2020.05.009
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Article ; Online: Evaluation of different percentages of Duroc genes and gender on growth, carcass and meat quality traits for pigs.

Dos Santos, João Carlos Rodrigues / Norenberg, Adriano / Correia, Bruna / Irgang, Renato / Bianchi, Ivan / Moreira, Fabiana / de Oliveira Júnior, Juahil Martins / Nörnberg, José Laerte / Peripolli, Vanessa

Meat science

2023 Volume 205, Page(s) 109314

Abstract: The effect of different percentages of Duroc genes in crossbreeding (5, 50 and 100%), the gender (immunocastrated males - ICM and females) and their interaction was evaluated on growth, carcass and meat quality traits for pigs. Crossbreds (50% Duroc) had ...

Abstract	The effect of different percentages of Duroc genes in crossbreeding (5, 50 and 100%), the gender (immunocastrated males - ICM and females) and their interaction was evaluated on growth, carcass and meat quality traits for pigs. Crossbreds (50% Duroc) had greater average daily feed intake, hot carcass weight and backfat thickness but lower meat yield when compared to 5% Duroc crossbreds and purebred (100% Duroc) animals (P < 0.05). Purebred (100% Duroc) animals had the lowest backfat thickness and subcutaneous fat thickness, and the greatest muscle depth and meat yield (P < 0.05). ICM animals had better feed conversion, greater average daily gain, hot carcass weight and amount of meat, and lower hot carcass yield, cold carcass weight, Longissimus thoracis depth, rib with belly and ham weights compared to females (P < 0.05). Marbling scores were greater in purebred (100%) animals (P < 0.05). The meat from 50% Duroc crossbreds and 100% Duroc purebred pigs was more reddish pink in color than 5% Duroc crossbreds (P < 0.05). Also, marbling scores were greater for females compared to ICM (P < 0.05). Purebred (100% Duroc) animals required more medications during production (P < 0.05).
MeSH term(s)	Female ; Male ; Animals ; Swine/genetics ; Eating ; Hybridization, Genetic ; Meat ; Paraspinal Muscles ; Phenotype
Language	English
Publishing date	2023-08-16
Publishing country	England
Document type	Journal Article
ZDB-ID	753319-6
ISSN	1873-4138 ; 0309-1740
ISSN (online)	1873-4138
ISSN	0309-1740
DOI	10.1016/j.meatsci.2023.109314
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