A5044732558- Phonetics and Phonology Research
- CRISPR and Genetic Engineering
- RNA and protein synthesis mechanisms
- Advanced biosensing and bioanalysis techniques
- Linguistic Studies and Language Acquisition
- Speech and Audio Processing
- Speech Recognition and Synthesis
- Speech and dialogue systems
- Linguistic Variation and Morphology
- Language Development and Disorders
- RNA Interference and Gene Delivery
- Linguistics and Language Studies
- RNA Research and Splicing
- Science and Education Research
- Plant nutrient uptake and metabolism
- Neuroscience and Music Perception
- Spanish Linguistics and Language Studies
- Carbohydrate Chemistry and Synthesis
- Glycosylation and Glycoproteins Research
- Enzyme Production and Characterization
- Migration, Racism, and Human Rights
- Aquaculture Nutrition and Growth
- Natural Language Processing Techniques
- Computational Physics and Python Applications
- Stuttering Research and Treatment
Universidade Federal de São Carlos
2014-2024
University of California, Riverside
2021-2024
Universidade Estadual de Campinas (UNICAMP)
2006-2019
Universidade Federal de Ciências da Saúde de Porto Alegre
2019
Stockholm University
2014
Universidade Federal de Minas Gerais
2012
Abstract Gaussian accelerated molecular dynamics (GaMD) is a robust computational method for simultaneous unconstrained enhanced sampling and free energy calculations of biomolecules. It works by adding harmonic boost potential to smooth biomolecular surface reduce barriers. GaMD greatly accelerates simulations orders magnitude. Without the need set predefined reaction coordinates or collective variables, provides advantageous simulating complex biological processes. The exhibits...
The target DNA specificity of the CRISPR-associated genome editor nuclease Cas9 is determined by complementarity to a 20-nucleotide segment in its guide RNA. However, can bind and cleave partially complementary off-target sequences, which raises safety concerns for use clinical applications. Here, we report crystallographic structures bound bona fide substrates, revealing that binding enabled range noncanonical base-pairing interactions within guide:off-target heteroduplex. Off-target...
Abstract The RNA programmed non-specific (trans) nuclease activity of CRISPR-Cas Type V and VI systems has opened a new era in the field nucleic acid-based detection. Here, we report on enhancement trans-cleavage Cas12a enzymes using hairpin DNA sequences as FRET-based reporters. We discover faster rate due to its improved affinity (Km) for structures, provide mechanistic insights our findings through Molecular Dynamics simulations. Using probes significantly enhance signal transduction...
Abstract CRISPR-Cas12a is a powerful RNA-guided genome-editing system that generates double-strand DNA breaks using its single RuvC nuclease domain by sequential mechanism in which initial cleavage of the non-target strand followed target cleavage. How spatially distant traverses toward catalytic core presently not understood. Here, continuous tens microsecond-long molecular dynamics and free-energy simulations reveal an α-helical lid, located within domain, plays pivotal role traversal...
Abstract An increasingly pressing need for clinical diagnostics has required the development of novel nucleic acid-based detection technologies that are sensitive, fast, and inexpensive, can be deployed at point-of-care. Recently, RNA-guided ribonuclease CRISPR-Cas13 been successfully harnessed such purposes. However, developing assays genetic variability, example single-nucleotide polymorphisms, is still challenging previously described design strategies not always generalizable. Here, we...
Cas13a is a recent addition to the CRISPR-Cas toolkit that exclusively targets RNA, which makes it promising tool for RNA detection. It utilizes CRISPR (crRNA) target sequences and trigger composite active site formed by two 'Higher Eukaryotes Prokaryotes Nucleotide' (HEPN) domains, cleaving any solvent-exposed RNA. In this system, an intriguing form of allosteric communication controls cleavage activity, yet its molecular details are unknown. Here, multiple-microsecond dynamics simulations...
ness in Speech-Metronome Synchronisation: P-Centres as Cyclic Attractors Plinio A. Barbosa, Pablo Arantes, Alexsandro R. Meireles, and Jussara M. Vieira Speech Prosody Studies Group, Department of Linguistics State University Campinas, Brazil plinio@iel.unicamp.br
We investigated long-term mean, median and base value of F0 to estimate how long it takes their variability stabilize.Change point analysis was used locate stabilization points.In one experiment, points were calculated in recordings the same text spoken 26 languages.Average are 5 seconds for 10 mean median.Variance after reduced around 40 times more than 100 value.In another four speakers read two different texts each.Stabilization speaker across do not exactly coincide as would be ideally...
Rhythmic patterns related to Brazilian Portuguese adjacent stresses and secondary stress were investigated under a dynamical systems perspective.Paired utterances contrasting alleged clash vs non reveal duration pattern difference in the opposite direction of Rhythm Rule: closer syllable-sized unit is phrase stress, longer its duration.Polysyllabic words may exhibit initial lengthening as possible indication an stress.The two phenomena are simulated by using same parameters with...
This paper reports experiments on speech production showing that secondary stress in Brazilian Portuguese (BP) can be best described as phrase-initial prominence cued by greater duration and pitch accent excursion initial position.It also a perception experiment which clicks were associated to consecutive V-to-V positions groups.Mean click detection RTs are gradient, but show no influence of lengthening.RTs near the phrasally stressed position shorter almost 60% RT variance accounted for...
The article reports favorable initial results to the hypothesis that rhythm perception can be seen as a listener-speaker entrainment process.The data comes from an experiment in which subjects had detect click test sentences.Each sentence contained one was associated of syllables two consecutive stress groups defined by duration criteria.Reaction time (RT) detection is assumed reflect degree entrainment: faster meaning stronger entrainment.Results show closer phrasally stressed syllable RT...
We investigated long-term mean, median, and base value of the voice fundamental frequency (F0) to estimate how long it takes their variability stabilize. That information can be useful in development F0 contour normalization forensic applications. Change point analysis was used locate changes underlying variance time-series. In one experiment, stabilization points were calculated recordings same text spoken 26 languages. Average are 5 s for 10 mean median. Variance after reduced around 40...
ABSTRACT The target DNA specificity of the CRISPR-associated genome editor nuclease Cas9 is determined by complementarity to a 20-nucleotide segment in its guide RNA. However, can bind and cleave partially complementary off-target sequences, which raises safety concerns for use clinical applications. Here we report crystallographic structures bound bona fide substrates, revealing that binding enabled range non-canonical base pairing interactions within guide–off-target heteroduplex....
To describe the judgement of concreteness a set 162 Brazilian Portuguese words, prior to elaboration speech recognition test, as well verify influence variables such frequency occurrence words and age undergraduate program year participants on ratings.Fifty Speech-Language Pathology Audiology students from public university rated using seven-point scale where lowest degree was represented by number one highest seven. Participants were free choose any in scale.The results showed tri-modal...
Exames fonético-forenses pautados no arcabouço bayesiano avaliam a força probatória da evidência pela razão entre o grau de similaridade e tipicidade das amostras fala comparadas. A diz sobre raridade um evento linguístico para calculá-la é preciso ter acesso dados que sejam representativos população relevante qual se supõe criminoso os suspeitos pertençam. Concomitante à promoção esforços elaboração e/ou seleção desses bancos dados, também discutir aspectos metodológicos permitam...
This study has two goals: (i) to identify possible factors favoring the apparent absence of non-final post-stressed vowels in antepenultimate stress words (when there are not evident visual cues oscillogram and spectrogram) (ii) verify evidences favor hypothesis that cases with fricative consonants preceding these can be interpreted as realizations totally covered by noise consonants. To fulfil goals, Articulatory Phonology framework was used, speech data were collected from experiments oral...
Analisamos o efeito do sexo, estilo de elocução e da língua (alemão, estoniano, francês, inglês, italiano, português sueco) sobre estimadores tendência central dispersão frequência fundamental fala. Os estilos são entrevista, leitura frases palavras. As línguas diferem entre si em termos valor típico F0 usado por seus falantes. O apresenta valores maiores que a mas não é uniforme as línguas. Diferenças significativas palavras entrevista mais raros. Todos os estudados sofreram efeitos dos...
Neste trabalho apresentamos dois experimentos que articulam as temáticas da qualidade de voz, disfluências, estilos elocução e prosódia. O primeiro experimento investiga aspectos segmentais prosódicos afetam a ocorrência laringalização, disfluências fronteiras grupo acentual. segundo estuda o uso voz não modal em diferentes contextos prosódicos, bem como três elocução: fala espontânea, leitura frases palavras isoladas. achado inédito no português brasileiro também mais robusto encontrado nos...
Investigamos o papel do estilo de elocução e falante sobre a estimativa tamanho mínimo amostra necessário para estimar forma estável taxa produção da fala. Os estilos comparados são entrevista semiespontânea leitura frases. São analisadas 20 amostras fala, 10 em cada estilo, 5 falantes sexo masculino feminino. tempos estabilização definidos como momento ao longo série temporal calculada cumulativa no qual há uma redução variabilidade na dados. Dois critérios definir estabilidade apresentados...