Toward a large‐scale and deep phenological stage annotation of herbarium specimens: Case studies from temperate, tropical, and equatorial floras
Sign Up to like & getrecommendations! Published in 2019 at "Applications in Plant Sciences"
DOI: 10.1002/aps3.1233
Abstract: Premise of the Study Phenological annotation models computed on large‐scale herbarium data sets were developed and tested in this study. Methods Herbarium specimens represent a significant resource with which to study plant phenology. Nevertheless, phenological… read more here.
Keywords: large scale; herbarium specimens; temperate tropical; annotation ... See more keywords
Virome assembly and annotation in brain tissue based on next‐generation sequencing
Sign Up to like & getrecommendations! Published in 2020 at "Cancer Medicine"
DOI: 10.1002/cam4.3325
Abstract: The glioblastoma multiforme (GBM) is one of the deadliest tumors. It has been speculated that virus plays a role in GBM but the evidences are controversy. Published researches are mainly limited to studies on the… read more here.
Keywords: annotation; gbm; brain; virome assembly ... See more keywords
The Gray Area of Freezing of Gait Annotation: A Guideline and Open‐Source Practical Tool
Sign Up to like & getrecommendations! Published in 2022 at "Movement Disorders Clinical Practice"
DOI: 10.1002/mdc3.13556
Abstract: Freezing of gait, a disabling episodic symptom, is difficult to assess as the exact begin‐ and endpoint of an episode is not easy to specify. This hampers scientific and clinical progress. The current golden standard… read more here.
Keywords: gait annotation; annotation guideline; gray area; annotation ... See more keywords
Tox21 Enricher: Web‐based Chemical/Biological Functional Annotation Analysis Tool Based on Tox21 Toxicity Screening Platform
Sign Up to like & getrecommendations! Published in 2018 at "Molecular Informatics"
DOI: 10.1002/minf.201700129
Abstract: The US Toxicology Testing in the 21st Century (Tox21) program was established to develop more efficient and human‐relevant toxicity assessment methods. The Tox21 program screens >10,000 chemicals using quantitative high‐throughput screening (qHTS) of assays that… read more here.
Keywords: tox21; tox21 enricher; toxicity; annotation ... See more keywords
Assisted annotation in Deep LOGISMOS: Simultaneous multi-compartment 3D MRI segmentation of calf muscles.
Sign Up to like & getrecommendations! Published in 2023 at "Medical physics"
DOI: 10.1002/mp.16284
Abstract: BACKGROUND Automated segmentation of individual calf muscle compartments in 3D MR images is gaining importance in diagnosing muscle disease, monitoring its progression, and prediction of the disease course. Although deep convolutional neural networks have ushered… read more here.
Keywords: assisted annotation; multi; calf; segmentation ... See more keywords
DomainMapper: Accurate domain structure annotation including those with non‐contiguous topologies
Sign Up to like & getrecommendations! Published in 2022 at "Protein Science"
DOI: 10.1002/pro.4465
Abstract: Automated domain annotation is an important tool for structural informatics. These pipelines typically involve searching query sequences against hidden Markov model (HMM) profiles, yielding matches to profiles for various domains. However, domain annotation can be… read more here.
Keywords: domain structure; non contiguous; domain; annotation ... See more keywords
Annotation of Specialized Metabolites from High-Throughput and High-Resolution Mass Spectrometry Metabolomics.
Sign Up to like & getrecommendations! Published in 2020 at "Methods in molecular biology"
DOI: 10.1007/978-1-0716-0239-3_12
Abstract: High-throughput mass spectrometry (MS) metabolomics profiling of highly complex samples allows the comprehensive detection of hundreds to thousands of metabolites under a given condition and point in time and produces information-rich data sets on known… read more here.
Keywords: spectrometry metabolomics; specialized metabolites; mass spectrometry; mass ... See more keywords
Feature-Based Molecular Networking for Metabolite Annotation.
Sign Up to like & getrecommendations! Published in 2020 at "Methods in molecular biology"
DOI: 10.1007/978-1-0716-0239-3_13
Abstract: The Global Natural Product Social Molecular Networking (GNPS) platform leverages tandem mass spectrometry (MS/MS) data for annotation of compounds. Molecular networks aid in the visualization of the chemical space within a metabolomics experiment. Recently, molecular… read more here.
Keywords: feature; annotation; based molecular; feature based ... See more keywords
Computational Methods for Pseudogene Annotation Based on Sequence Homology.
Sign Up to like & getrecommendations! Published in 2021 at "Methods in molecular biology"
DOI: 10.1007/978-1-0716-1503-4_3
Abstract: The number of complete genome sequences explodes more and more with each passing year. Thus, methods for genome annotation need to be honed constantly to handle the deluge of information. Annotation of pseudogenes (i.e., gene… read more here.
Keywords: annotation; sequence homology; computational methods; pseudogene annotation ... See more keywords
From Gene Annotation to Function Prediction for Metagenomics.
Sign Up to like & getrecommendations! Published in 2017 at "Methods in molecular biology"
DOI: 10.1007/978-1-4939-7015-5_3
Abstract: Microbes play important roles in almost every aspect of life, including human health and diseases. Facilitated by the rapid development of sequencing technologies, metagenomics research has accelerated the accumulation of genomic sequences of microbial species… read more here.
Keywords: prediction metagenomics; annotation; gene annotation; annotation function ... See more keywords
Phage Genome Annotation Using the RAST Pipeline.
Sign Up to like & getrecommendations! Published in 2018 at "Methods in molecular biology"
DOI: 10.1007/978-1-4939-7343-9_17
Abstract: Phages are complex biomolecular machineries that have to survive in a bacterial world. Phage genomes show many adaptations to their lifestyle such as shorter genes, reduced capacity for redundant DNA sequences, and the inclusion of… read more here.
Keywords: pipeline; phage genome; phage; annotation ... See more keywords