Bioinformatics

Semi-Automated Identification of Ontological Labels in the Biomedical Literature with goldi
Christopher B. Cole, Sejal Patel, Leon French, Jo Knight

bioRxiv 073460; doi: https://doi.org/10.1101/073460

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Overlapping long sequence reads: Current innovations and challenges in developing sensitive, specific and scalable algorithms
Justin Chu, Hamid Mohamadi, René L Warren, Chen Yang, Inanc Birol

bioRxiv 081596; doi: https://doi.org/10.1101/081596 Confirmatory Results

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FIDDLE: An integrative deep learning framework for functional genomic data inference
Umet Eser, L. Stirling Churchman

bioRxiv 081380; doi: https://doi.org/10.1101/081380

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Automatic time-series phenotyping using massive feature extraction
B. D. Fulcher, N. S. Jones

bioRxiv 081463; doi: https://doi.org/10.1101/081463

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Semi-automated genome annotation using epigenomic data and Segway
Eric G. Roberts, Mickaël Mendez, Coby Viner, Mehran Karimzadeh, Rachel Chan, Rachel Ancar, Davide Chicco, Jay R. Hesselberth, Anshul Kundaje, Michael M. Hoffman

bioRxiv 080382; doi: https://doi.org/10.1101/080382

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Identification of new bacterial type III secreted effectors with a recursive Hidden Markov Model profile-alignment strategy
Xi Cheng, Xinjie Hui, Aaron P. White, Zhirong Guo, Yueming Hu, Yejun Wang

bioRxiv 081265; doi: https://doi.org/10.1101/081265

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UNOISE2: improved error-correction for Illumina 16S and ITS amplicon sequencing
Robert C. Edgar

bioRxiv 081257; doi: https://doi.org/10.1101/081257

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ALTRE: workflow for defining ALTered Regulatory Elements using chromatin accessibility data
Elizabeth Baskin, Rick Farouni, Ewy A. Mathe

bioRxiv 080564; doi: https://doi.org/10.1101/080564

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Benchmarking substrate-based kinase activity inference using phosphoproteomic data
Claudia Hernandez-Armenta, David Ochoa, Emanuel Gonçalves, Julio Saez-Rodriguez, Pedro Beltrao

bioRxiv 080978; doi: https://doi.org/10.1101/080978

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AGFusion: annotate and visualize gene fusions
Charlie Murphy, Olivier Elemento

bioRxiv 080903; doi: https://doi.org/10.1101/080903

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Bioinformatics

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