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  1. Deep metagenomic sequencing unveils novel SAR202 lineages and their vertical adaptation in the ocean

    SAR202 bacteria in the Chloroflexota phylum are abundant and widely distributed in the ocean. Their genome coding capacities indicate their potential...

    Changfei He, Daniel Fucich, ... Feng Chen in Communications Biology
    Article Open access 12 July 2024
  2. Understanding the role of eye movement consistency in face recognition and autism through integrating deep neural networks and hidden Markov models

    Greater eyes-focused eye movement pattern during face recognition is associated with better performance in adults but not in children. We test the...

    Janet H. Hsiao, Jeehye An, ... Antoni B. Chan in npj Science of Learning
    Article Open access 25 October 2022
  3. Deep Neural Networks

    The focus of this chapter is on deep neural networks, a special machine learning method in the field of artificial intelligence. These novel methods...
    Dominik Raabe in Computer Science in Sport
    Chapter 2024
  4. RNA contact prediction by data efficient deep learning

    On the path to full understanding of the structure-function relationship or even design of RNA, structure prediction would offer an intriguing...

    Oskar Taubert, Fabrice von der Lehr, ... Alexander Schug in Communications Biology
    Article Open access 06 September 2023
  5. Deep-Sea Life

    The conditions at which life below 200 m in the water column and the deep seafloor in Mexico’s Exclusive Economic Zone in three regional seas...
    Elva Escobar Briones in Mexican Fauna in the Anthropocene
    Chapter 2023
  6. Building trust in deep learning-based immune response predictors with interpretable explanations

    The ability to predict whether a peptide will get presented on Major Histocompatibility Complex (MHC) class I molecules has profound implications in...

    Piyush Borole, Ajitha Rajan in Communications Biology
    Article Open access 06 March 2024
  7. The Deep Sea

    The deep ocean makes up the single, biggest portion of the earth’s biosphere. Of all the habitable space available for living things to occupy, at...
    Helen Scales in The Ocean and Us
    Chapter 2023
  8. Unsupervised deep representation learning enables phenotype discovery for genetic association studies of brain imaging

    Understanding the genetic architecture of brain structure is challenging, partly due to difficulties in designing robust, non-biased descriptors of...

    Khush Patel, Ziqian **e, ... Degui Zhi in Communications Biology
    Article Open access 05 April 2024
  9. Deep learning-based fishing ground prediction with multiple environmental factors

    Improving the accuracy of fishing ground prediction for oceanic economic species has always been one of the most concerning issues in fisheries...

    Mingyang **e, Bin Liu, **njun Chen in Marine Life Science & Technology
    Article 29 April 2024
  10. Colonial history and global economics distort our understanding of deep-time biodiversity

    Sampling biases in the fossil record distort estimates of past biodiversity. However, these biases not only reflect the geological and spatial...

    Nussaïbah B. Raja, Emma M. Dunne, ... Devapriya Chattopadhyay in Nature Ecology & Evolution
    Article 30 December 2021
  11. Deep proteomic analysis of obstetric antiphospholipid syndrome by DIA-MS of extracellular vesicle enriched fractions

    Proteins in the plasma/serum mirror an individual’s physiology. Circulating extracellular vesicles (EVs) proteins constitute a large portion of the...

    Wenmin Tian, Dongxue Shi, ... Yang Chen in Communications Biology
    Article Open access 15 January 2024
  12. High-throughput deep learning variant effect prediction with Sequence UNET

    Understanding coding mutations is important for many applications in biology and medicine but the vast mutation space makes comprehensive...

    Alistair S. Dunham, Pedro Beltrao, Mohammed AlQuraishi in Genome Biology
    Article Open access 09 May 2023
  13. Deep sampling of gRNA in the human genome and deep-learning-informed prediction of gRNA activities

    Life science studies involving clustered regularly interspaced short palindromic repeat (CRISPR) editing generally apply the best-performing guide...

    Heng Zhang, Jianfeng Yan, ... Lijia Ma in Cell Discovery
    Article Open access 16 May 2023
  14. A review of current knowledge on reproductive and larval processes of deep-sea corals

    The presence of corals living in deep waters around the globe has been documented in various publications since the late 1800s, when the first...

    Rhian G. Waller, Savannah Goode, ... Annie Mercier in Marine Biology
    Article Open access 04 April 2023
  15. Design and validation of a deep evolutionary time visual instrument (DET-Vis)

    Understanding deep evolutionary time is crucial for biology education and for conceptualizing evolutionary history. Although such knowledge might...

    Jörgen I. Stenlund, Konrad J. Schönborn, Gunnar E. Höst in Evolution: Education and Outreach
    Article Open access 06 July 2022
  16. Deep learning algorithms applied to computational chemistry

    Recently, there has been a significant increase in the use of deep learning techniques in the molecular sciences, which have shown high performance...

    Abimael Guzman-Pando, Graciela Ramirez-Alonso, ... Javier Camarillo-Cisneros in Molecular Diversity
    Article 27 December 2023
  17. Deep learning for automatic facial detection and recognition in Japanese macaques: illuminating social networks

    Individual identification plays a pivotal role in ecology and ethology, notably as a tool for complex social structures understanding. However,...

    Julien Paulet, Axel Molina, ... Cédric Sueur in Primates
    Article 17 May 2024
  18. Ecogenomics reveals viral communities across the Challenger Deep oceanic trench

    Despite the environmental challenges and nutrient scarcity, the geographically isolated Challenger Deep in Mariana trench, is considered a dynamic...

    Ying-Li Zhou, Paraskevi Mara, ... Yong Wang in Communications Biology
    Article Open access 04 October 2022
  19. Integration of pre-trained protein language models into geometric deep learning networks

    Geometric deep learning has recently achieved great success in non-Euclidean domains, and learning on 3D structures of large biomolecules is emerging...

    Fang Wu, Lirong Wu, ... Stan Z. Li in Communications Biology
    Article Open access 25 August 2023
  20. GDCL-NcDA: identifying non-coding RNA-disease associations via contrastive learning between deep graph learning and deep matrix factorization

    Non-coding RNAs (ncRNAs) draw much attention from studies widely in recent years because they play vital roles in life activities. As a good...

    Ning Ai, Yong Liang, ... **aoying Liu in BMC Genomics
    Article Open access 27 July 2023
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