A5091930526- Cancer-related molecular mechanisms research
- Molecular Biology Techniques and Applications
- RNA modifications and cancer
- Genomics and Phylogenetic Studies
- RNA Research and Splicing
- Species Distribution and Climate Change
- RNA and protein synthesis mechanisms
- Maritime and Coastal Archaeology
- Image Processing and 3D Reconstruction
- Nematode management and characterization studies
- Remote Sensing and LiDAR Applications
- Geology and Paleoclimatology Research
- Wildlife Ecology and Conservation
- Marine and environmental studies
- Plant Pathogens and Fungal Diseases
- Genetic diversity and population structure
- Geographic Information Systems Studies
- Entomopathogenic Microorganisms in Pest Control
Institute for Integrative Systems Biology
2023-2024
Consejo Superior de Investigaciones Científicas
2023-2024
Institut Català de Ciències del Clima
2024
Institut de Ciències del Mar
2024
University of Alicante
2023
Universitat Politècnica de València
2023
Abstract The Long-read RNA-Seq Genome Annotation Assessment Project Consortium was formed to evaluate the effectiveness of long-read approaches for transcriptome analysis. Using different protocols and sequencing platforms, consortium generated over 427 million sequences from complementary DNA direct RNA datasets, encompassing human, mouse manatee species. Developers utilized these data address challenges in transcript isoform detection, quantification de novo detection. study revealed that...
SQANTI3 is a tool designed for the quality control, curation and annotation of long-read transcript models obtained with third-generation sequencing technologies. Leveraging its framework, calculates descriptors models, junctions ends. With this information, potential artifacts can be identified replaced reliable sequences. Furthermore, integrated functional feature enables subsequent iso-transcriptomics analyses.
Abstract The Long-read RNA-Seq Genome Annotation Assessment Project (LRGASP) Consortium was formed to evaluate the effectiveness of long-read approaches for transcriptome analysis. consortium generated over 427 million sequences from cDNA and direct RNA datasets, encompassing human, mouse, manatee species, using different protocols sequencing platforms. These data were utilized by developers address challenges in transcript isoform detection quantification, as well de novo identification....
Abstract The emergence of long-read RNA sequencing (lrRNA-seq) has provided an unprecedented opportunity to analyze transcriptomes at isoform resolution. However, the technology is not free from biases, and transcript models inferred these data require quality control curation. In this study, we introduce SQANTI3, a tool specifically designed perform analysis on constructed using lrRNA-seq data. SQANTI3 provides extensive naming framework describe model diversity in comparison reference...
Long-read RNA sequencing has emerged as a powerful tool for transcript discovery, even in well-annotated organisms. However, assessing the accuracy of different methods identifying annotated and novel transcripts remains challenge. Here, we present SQANTI-SIM, versatile that wraps around popular long-read simulators to allow precise management novelty based on structural categories defined by SQANTI3. By selectively excluding specific from reference dataset, SQANTI-SIM effectively emulates...
<title>Abstract</title> Species Distribution Models (SDMs) have been widely applied in ecology to analyze the historical and future patterns of marine species' distributions. With increasing impact climate change recent decades, understanding potential shifts species distributions has become a crucial challenge. Research on alterations spatial temporal revealed an focus developing different statistical approaches for global-scale long-term forecasts. One promising approach is Bayesian...
Fungal volatile organic compounds (VOCs) are responsible for fungal odor and play a key role in biological processes ecological interactions. VOCs represent promising area of research to find natural metabolites human exploitation. Pochonia chlamydosporia is chitosan-resistant nematophagous fungus used agriculture control plant pathogens widely studied combination with chitosan. The effect chitosan on the production from P. was analyzed using gas chromatography–mass spectrometry (GC-MS)....
We provide here a multi-proxy, ecosystem-level assessment of paleoenvironmental change and its impacts on marine organisms living in the Eastern Mediterranean during Middle Pleistocene Transition, between 923 756 kyr B.P. (marine isotope stages MIS 23-18). This study combines organic biomarker analyses; matter content carbon oxygen stable analyses bulk sediment, surface-dwelling, deep-dwelling planktonic benthic foraminifera, ostracods fish otoliths; ostracod sponge abundance estimates, with...
Long-read RNA-seq has emerged as a powerful tool for transcript discovery, even in well-annotated organisms. However, assessing the accuracy of different methods identifying annotated and novel transcripts remains challenge. Here, we present SQANTI-SIM, versatile utility that wraps around popular long-read simulators to allow precise management novelty based on structural categories defined by SQANTI3. By selectively excluding specific from reference dataset, SQANTI-SIM effectively emulates...