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Browsing by Author "Silva, Diogo"

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  • Emotionally expressive motion controller for virtual character locomotion animations
    Publication . Silva, Diogo; Santos, Pedro A.; Dias, Joao
    Style and emotional expressiveness are essential aspects of virtual character computer animation. For a virtual character to display different emotions, motion capture data conveying each desired style has to be recorded, even if the baseline motion is the same. Animators then have to refine and conjoin each recording in order to create the final animations making it a timely and costly process. Although there have been efforts made into the automatic generation of motions, the problem persists that, for each new desired emotion, reference data displaying said emotion has to be readily available and a new motion has to be learned from scratch. By combining Machine Learning with Emotion Analysis - in particular Laban Movement Analysis and the Pleasure, Arousal, Dominance Emotional State Model - we have developed a system that is capable of not only identifying the perceived emotion of locomotion animations but that also allows users to alter the character's expressed emotion in real time and without the need of additional data.
    2022Journal article Restricted access Show more
  • MAMMALS in Portugal: A data set of terrestrial, volant, and marine mammal occurrences in Portugal
    Publication . Grilo, Clara; Afonso, Beatriz C.; Afonso, Filipe; Alexandre, Marta; Aliácar, Sara; Almeida, Ana; Alonso, Ivan Prego; Álvares, Francisco; Alves, Paulo; Alves, Paulo Célio; Alves, Pedro; Duarte, Beatriz; Duro, Virginia; Encarnação, Cláudia; Eufrázio, Sofia; Fael, António; Falé, João Salvador; Faria, Sandra; Fernandes, Carlos; Fernandes, Margarida; Lopes, Susana; Rosalino, Luís Miguel; Costa, Gonçalo Ferrão; Ferreira, Clara; Ferreira, Diogo F.; Ferreira, Eduardo; Ferreira, Joaquim Pedro; Ferreira, João; Ferreira, Diana; Fonseca, Carlos; Fontes, Inês; Fragoso, Ricardo; Rosário, Inês T.; López‐Baucells, Adrià; Franco, Claudia; Freitas, Tamira; Gabriel, Sofia I.; Gibb, Rory; Gil, Patricia; Gomes, Carla Patricia Jorge; Horta, Pedro; Gomes, Pedro; Gomes, Verónica; Rossa, Mariana; Grilo, Filipa; Amado, Anabela; Guedes, Américo; Guilherme, Filipa; Gutiérrez, Iván; Harper, Henry; Herrera, José M.; Hipólito, Dário; Infante, Samuel; Jesus, José; Russo, Danilo; Loureiro, Armando; Loureiro, Filipa; Lourenço, Rui; Lourenço, Sofia; Lucas, Paula; Magalhães, Ana; Maldonado, Cristina; Marcolin, Fabio; Marques, Sara; Marques, J. Tiago; Sá, Pedro; Amendoeira, Vitor; Marques, Carina; Marques, Paulo; Marrecas, Pedro Caetano; Martins, Frederico; Martins, Raquel; Mascarenhas, Miguel; Mata, Vanessa A.; Mateus, Ana Rita; Matos, Milene; Sabino‐Marques, Helena; Medinas, Denis; Amorim, Francisco; Mendes, Tiago; Mendes, Gabriel; Mestre, Frederico; Milhinhas, Catarina; Mira, António; Monarca, Rita I.; Monteiro, Norberto; Monteiro, Barbara; Salgueiro, Vânia; Monterroso, Pedro; Nakamura, Mónia; Silva Aparício, Guilherme; Negrões, Nuno; Nóbrega, Eva K.; Nóvoa, Miguel; Nunes, Manuel; Nunes, Nuno Jardim; Oliveira, Flávio; Oliveira, José Miguel; Santos, Helena; Palmeirim, Jorge M.; Pargana, João; Paula, Anabela; Araújo, Ricardo; Paupério, Joana; Pedroso, Nuno M.; Pereira, Guilherme; Pereira, Pedro F.; Pereira, José; Pereira, Maria João Ramos; Santos, Joana; Petrucci‐Fonseca, Francisco; Pimenta, Miguel; Pinto, Sara; Pinto, Nuno; Ascensão, Fernando; Pires, Rosa; Pita, Ricardo; Pontes, Carlos; Quaresma, Marisa; Queirós, João; Barbosa, A. Márcia; Queirós, Luís; Rainho, Ana; Graça Ramalhinho, Maria; Ramalho, Patrícia; Raposeira, Helena; Augusto, Margarida; Rasteiro, Francisco; Rebelo, Hugo; Regala, Frederico Tátá; Reto, Dyana; Jones, Kate E.; Ribeiro, Sérgio Bruno; Rio‐Maior, Helena; Rocha, Ricardo; Rocha, Rita Gomes; Rodrigues, Luísa; Román, Jacinto; Bandeira, Victor; Roque, Sara; Santos, João P. V.; Santos, Nuno; Santos, Sara; Santos, Carlos Pedro; Santos‐Reis, Margarida; Serronha, Ana; Sierra, Pablo; Silva, Bruno; Silva, Carla S. G. M.; Silva, Clara; Laborde, Marina I.; Barbosa, Soraia; Silva, Diogo; Silva, Luís P.; Silva, Ricardo; Silva, Carmen; Silva Júnior, Flavio Manoel Rodrigues; Sousa, Pedro; Sousa‐Guedes, Diana; Spadoni, Giulia; Tapisso, Joaquim T.; Oliveira, Luís Lamas; Teixeira, Daniela; Barbosa, Sérgio; Teixeira, Sérgio; Teixeira, Nuno; Torres, Rita T.; Travassos, Paulo; Vale‐Gonçalves, Hélia; Cidraes‐Vieira, Nuno; Merten, Sophie; Luz Mathias, Maria; Leitão, Inês; Barreiro, Silvia; Barros, Paulo; Barros, Tânia; Barros, Filomena; Basto, Mafalda; Bernardino, Joana; Bicho, Sara; Biedma, Luis Eduardo; Borges, Marta; Braz, Luis; Lemos, Rita; Brito, José Carlos; Brito, Tiago; Cabral, João Alexandre; Calzada, Javier; Camarinha, Cláudia; Carapuço, Mafalda; Cardoso, Paulo; Carmo, Mário; Carrapato, Carlos; Silva Carrilho, Maílis; Lima, Cátia; Carvalho, Diogo Filipe T. C. S.; Carvalho, Filipe; Carvalho, João; Castro, Diana; Castro, Guilherme; Castro, Joana; Castro, Luis Roma; Catry, Filipe Xavier; Cerveira, Ana M.; Cid, André; Linck, Paloma; Clarke, Rafael; Conde, Conceição; Conde, José; Costa, Jorge; Costa, Mafalda; Costa, Pedro; Costa, Cristina; Couto, André Pedro; Craveiro, João; Dias, Marta; Lopes, Hugo; Dias, Sofia
    Mammals are threatened worldwide, with 26% of all species being includedin the IUCN threatened categories. This overall pattern is primarily associatedwith habitat loss or degradation, and human persecution for terrestrial mam-mals, and pollution, open net fishing, climate change, and prey depletion formarine mammals. Mammals play a key role in maintaining ecosystems func-tionality and resilience, and therefore information on their distribution is cru-cial to delineate and support conservation actions. MAMMALS INPORTUGAL is a publicly available data set compiling unpublishedgeoreferenced occurrence records of 92 terrestrial, volant, and marine mam-mals in mainland Portugal and archipelagos of the Azores and Madeira thatincludes 105,026 data entries between 1873 and 2021 (72% of the data occur-ring in 2000 and 2021). The methods used to collect the data were: live obser-vations/captures (43%), sign surveys (35%), camera trapping (16%),bioacoustics surveys (4%) and radiotracking, and inquiries that represent lessthan 1% of the records. The data set includes 13 types of records: (1) burrowsjsoil moundsjtunnel, (2) capture, (3) colony, (4) dead animaljhairjskullsjjaws, (5) genetic confirmation, (6) inquiries, (7) observation of live animal (8),observation in shelters, (9) photo trappingjvideo, (10) predators dietjpelletsjpine cones/nuts, (11) scatjtrackjditch, (12) telemetry and (13) vocalizationjecholocation. The spatial uncertainty of most records ranges between 0 and100 m (76%). Rodentia (n=31,573) has the highest number of records followedby Chiroptera (n=18,857), Carnivora (n=18,594), Lagomorpha (n=17,496),Cetartiodactyla (n=11,568) and Eulipotyphla (n=7008). The data setincludes records of species classified by the IUCN as threatened(e.g.,Oryctolagus cuniculus[n=12,159],Monachus monachus[n=1,512],andLynx pardinus[n=197]). We believe that this data set may stimulate thepublication of other European countries data sets that would certainly contrib-ute to ecology and conservation-related research, and therefore assisting onthe development of more accurate and tailored conservation managementstrategies for each species. There are no copyright restrictions; please cite this data paper when the data are used in publications.
    2022Journal article Open access Show more
  • Unveiling molecular details behind improved activity at neutral to alkaline pH of an engineered DyP-type peroxidase
    Publication . Borges, Patrícia T.; Silva, Diogo; Silva, Tomás F.D.; Brissos, Vânia; Cañellas, Marina; Lucas, Maria Fátima; Masgrau, Laura; Melo, Eduardo; Machuqueiro, Miguel; Frazão, Carlos; Martins, Lígia O.
    DyP-type peroxidases (DyPs) are microbial enzymes that catalyze the oxidation of a wide range of substrates, including synthetic dyes, lignin-derived compounds, and metals, such as Mn2+ and Fe2+, and have enormous biotechnological potential in biorefineries. However, many questions on the molecular basis of enzyme function and stability remain unanswered. In this work, high-resolution structures of PpDyP wild-type and two engineered variants (6E10 and 29E4) generated by directed evolution were obtained. The X-ray crystal structures revealed the typical ferredoxin-like folds, with three heme access pathways, two tunnels, and one cavity, limited by three long loops including catalytic residues. Variant 6E10 displays significantly increased loops' flexibility that favors function over stability: despite the considerably higher catalytic efficiency, this variant shows poorer protein stability compared to wild-type and 29E4 variants. Constant-pH MD simulations revealed a more positively charged microenvironment near the heme pocket of variant 6E10, particularly in the neutral to alkaline pH range. This microenvironment affects enzyme activity by modulating the pK(a) of essential residues in the heme vicinity and should account for variant 6E10 improved activity at pH 7-8 compared to the wild-type and 29E4 that show optimal enzymatic activity close to pH 4. Our findings shed light on the structure-function relationships of DyPs at the molecular level, including their pH-dependent conformational plasticity. These are essential for understanding and engineering the catalytic properties of DyPs for future biotechnological applications. (c) 2022 The Author(s). Published by Elsevier B.V. on behalf of Research Network of Computational and Structural Biotechnology.
    2022-12Journal article Open access Show more