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23 Research products, page 1 of 3

  • Publications
  • Research data
  • Research software
  • 2017-2021
  • Open Access
  • National Science Foundation
  • bioRxiv
  • Digital Humanities and Cultural Heritage

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  • Publication . Article . Conference object . 2020
    Open Access
    Authors: 
    Goksel Misirli; Jacob Beal; Thomas E. Gorochowski; Guy-Bart Stan; Anil Wipat; Chris J. Myers;
    Publisher: bioRxiv
    Country: United Kingdom
    Project: NSF | Collaborative Research: E... (1522074), UKRI | Synthetic Portabolomics: ... (EP/N031962/1), UKRI | Design the Future 2: Thin... (EP/R003629/1)

    AbstractStandardising the visual representation of genetic parts and circuits is vital for unambiguously creating and interpreting genetic designs. To this end, an increasing number of tools are adopting well-defined glyphs from the Synthetic Biology Open Language (SBOL...

  • Open Access English
    Authors: 
    Ian R. Braun; Ian R. Braun; Carolyn J. Lawrence-Dill; Carolyn J. Lawrence-Dill; Carolyn J. Lawrence-Dill;
    Publisher: Frontiers Media S.A.
    Project: NSF | NRT-DESE: P3 -- Predictiv... (1545453), NSF | RCN: Phenotype Ontology R... (0956049)

    1AbstractNatural language descriptions of plant phenotypes are a rich source of information for genetics and genomics research. We computationally translated descriptions of plant phenotypes into structured representations that can be analyzed to identify biologically m...

  • Open Access
    Authors: 
    Chen, Sai; Krusche, Peter; Dolzhenko, Egor; Sherman, Rachel M.; Petrovski, Roman; Schlesinger, Felix; Kirsche, Melanie; Bentley, David R.; Schatz, Michael C.; Sedlazeck, Fritz J.; +1 more
    Publisher: bioRxiv
    Project: NSF | CAREER: Algorithms for si... (1350041), NIH | Computational Methods for... (2R01HG006677-15A1), NIH | Genomic Architecture of C... (3UM1HG008898-01S3)

    Abstract Accurate detection and genotyping of structural variations (SVs) from short-read data is a long-standing area of development in genomics research and clinical sequencing pipelines. We introduce Paragraph, a fast and accurate genotyper that models SVs using sequ...

  • Open Access
    Authors: 
    Nikitin, Alexey G.; Stadler, Peter; Kotova, Nadezhda; Teschler-Nicola, Maria; Price, T. Douglas; Hoover, Jessica; Kennett, Douglas J.; Lazaridis, Iosif; Rohland, Nadin; Lipson, Mark; +1 more
    Publisher: Springer Science and Business Media LLC
    Project: NIH | Population mixture in evo... (1R01GM100233-01), NSF | A new history and geograp... (1032255)

    ABSTRACTArchaeogenetic research over the last decade has demonstrated that European Neolithic farmers (ENFs) were descended primarily from Anatolian Neolithic farmers (ANFs). ENFs, including early Neolithic central European Linearbandkeramik (LBK) farming communities, a...

  • Open Access
    Authors: 
    O’Mahoney, Thomas; Mcknight, Lidija; Lowe, Tristan; Mednikova, Maria; Dunn, Jacob;
    Publisher: bioRxiv
    Project: UKRI | Next Generation Multi-Dim... (EP/M010619/1), UKRI | Residual Stress & Dam... (EP/F028431/1), UKRI | Tomographic Imaging (EP/M022498/1), NSF | Doctoral Dissertation Res... (1540421)

    AbstractSegmentation of high-resolution tomographic data is often an extremely time-consuming task and until recently, has usually relied upon researchers manually selecting materials of interest slice by slice. With the exponential rise in datasets being acquired, this...

  • Open Access English
    Authors: 
    McEntee, Jay P.; Zhelezov, Gleb; Werema, Chacha; Najar, Nadje; Peñalba, Joshua V.; Mulungu, Elia; Mbilinyi, Maneno; Karimi, Sylvester; Chumakova, Lyubov; Burleigh, J. Gordon; +1 more
    Publisher: Cold Spring Harbor Laboratory
    Project: NSF | Dissertation Research: Bi... (1011702), NSF | CAREER: Defects and singu... (1056471), NSF | An integrative approach t... (1458034)

    AbstractSignals used in animal communication, especially those that are learned, are thought to be prone to rapid and/or regular evolution. It has been hypothesized that the evolution of song learning in birds has resulted in elevated diversification rates, as learned s...

  • Publication . Article . Other literature type . Preprint . 2019
    Open Access English
    Authors: 
    Cory Shain; Idan Blank; Marten van Schijndel; William Schuler; Evelina Fedorenko;
    Publisher: Elsevier BV
    Country: United States
    Project: NSF | RI: Small:Comp Cog: Broad... (1816891), NIH | fMRI investigations of th... (4R00HD057522-03)

    AbstractMuch research in cognitive neuroscience supports prediction as a canonical computation of cognition across domains. Is such predictive coding implemented by feedback from higher-order domain-general circuits, or is it locally implemented in domain-specific circu...

  • Open Access
    Authors: 
    Marcus, Joseph H.; Posth, Cosimo; Ringbauer, Harald; Lai, Luca; Skeates, Robin; Sidore, Carlo; Beckett, Jessica; Furtwängler, Anja; Olivieri, Anna; Chiang, Charleston; +12 more
    Publisher: bioRxiv
    Project: NIH | Genetics and Regulation (2T32GM007197-32), NSF | A new history and geograp... (1032255), NSF | Graduate Research Fellows... (1746045)

    Recent ancient DNA studies of western Eurasia have revealed a dynamic history of admixture, with evidence for major migrations during the Neolithic and Bronze Age. The population of the Mediterranean island of Sardinia has been notable in these studies –} Neolithic indi...

  • Open Access
    Authors: 
    Fregel, Rosa; Ordóñez, Alejandra C.; Santana-Cabrera, Jonathan; Cabrera, Vicente M.; Velasco-Vázquez, Javier; Alberto, Verónica; Moreno-Benítez, Marco A.; Delgado-Darias, Teresa; Rodríguez-Rodríguez, Amelia; Hernández, Juan C.; +9 more
    Countries: United Kingdom, United States
    Project: NSF | Statistical Methods for E... (1201234), EC | ISONEO (750460)

    AbstractThe Canary Islands’ indigenous people have been the subject of substantial archaeological, anthropological, linguistic and genetic research pointing to a most probable North African Berber source. However, neither agreement about the exact point of origin nor a ...

  • Open Access
    Authors: 
    Hinderer III, Eugene W.; Flight, Robert M.; Dubey, Rashmi; MacLeod, James N.; Moseley, Hunter N.B.;
    Publisher: Public Library of Science (PLoS)
    Project: NSF | CAREER: Developing Bioche... (1419282), NIH | Kentucky Center for Clini... (5UL1TR001998-02), NSF | CAREER: Developing Bioche... (1252893), NIH | ANALYTICAL CORE (1U24DK097215-01A1)

    AbstractGene-annotation enrichment is a common method for utilizing ontology-based annotations in these gene and gene-product centric knowledgebases. Effective utilization of these annotations requires inferring semantic linkages by tracing paths through the ontology th...