Selected Journal Papers | Paul G. Allen School of Computer Science & Engineering

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2021

Cover of the March 2018 issue of Nature Biotechnology depicting an illustration of a guitarist as a line drawing in blue, with a DNA double helix as the guitar cord

Towards routine, city-scale accessibility metrics: Graph theoretic interpretations of pedestrian access using personalized pedestrian network analysis, PLoS ONE, 16(3) (19 March 2021)
Identifying with all humanity predicts cooperative health behaviors and helpful responding during COVID-19, PLoS ONE, 16(3) (10 March 2021)
Using smart speakers to contactlessly monitor heart rhythms, Communications Biology, vol. 4, art. 319 (2021)
Absolute and arbitrary orientation of single-molecule shapes, Science, vol. 371, issue 6531 (19 Feb 2021)
Microbial single-cell RNA sequencing by split-pool barcoding, Science, vol. 371, issue 6531 (19 Feb 2021)

2020

Rapid and robust assembly and decoding of molecular tags with DNA-based nanopore signatures, Nature Communications, vol. 11, art. 5454 (2020)

Wireless steerable vision for live insects and insect-scale robots, Science Robotics, vol. 5, issue 44 (15 July 2020)

Probing the physical limits of reliable DNA data retrieval, Nature Communications, vol. 11, art. 616 (2020)

Controlling for Participants' Viewing Distance in Large-Scale, Psychophysical Online Experiments, Nature Scientific Reports vol. 10, art. 904 (2020)

From local explanations to global understanding with explainable AI for trees, Nature Machine Intelligence (17 January 2020)

2019

Consumer-grade fabrication and its potential to revolutionize accessibility J Mankoff, M Hofmann, XA Chen, SE Hudson, A Hurst, J Kim Communications of the ACM 62 (10), 64-75
Modeling other minds: Bayesian inference explains human choices in group-decision making, Science Advances 27 November 2019, vol. 5, no. 11
Assessment of Machine Learning of Breast Pathology Structures for Automated Differentiation of Breast Cancer and High-Risk Proliferative Lesions, JAMA Network Open August 9, 2019 2(8):e19877
DNA assembly for nanopore data storage readout, Nature Communications vol. 10, art. 2933 (2019)
Contactless cardiac arrest detection using smart devices, npj Digital Medicine 2, art. 52 (2019)
De novo protein design by citizen scientists, Nature 5 June 2019
Detecting middle ear fluid using smartphones, Science Translational Medicine 15 May 2019, vol. 11, issue 492
Molecular digital data storage using DNA, Nature Reviews Genetics 08 May 2019
BrainNet: A Multi-Person Brain-to-Brain Interface for Direct Collaboration Between Brains, Nature Scientific Reports vol. 9, art. 6115 (2019)
High density DNA data storage library via hydration with digital microfluidic retrieval, Nature Communications vol. 10, art. 1706 (2019)
Demonstration of end-to-end automation of DNA data storage, Nature Scientific Reports vol. 9, art. 4998 (2019)
AIControl: Replacing matched control experiments with machine learning improves ChIP-seq peak identification, Nucleic Acids Research gkz156, 14 March 2019
Opioid overdose detection using smartphones, Science Translational Medicine 09 Jan 2019: vol. 11, issue 474

2018

Explainable AI predicts blood-oxygen levels during anaesthesia, Nature Biomedical Engineering vol. 2, pp. 749–760 (2018)
Single-cell profiling of the developing mouse brain and spinal cord with split-pool barcoding, Science 13 Apr 2018: vol. 360, issue 6385, pp. 176-182
Random access in large-scale DNA data storage, Nature Biotechnology vol. 36, pp. 242–248 (2018)
A machine learning approach to integrate big data for precision medicine in acute myeloid leukemia, Nature Communications vol. 9, art. 42 (2018)

2017 & Earlier

A spatially localized architecture for fast and modular DNA computing, Nature Nanotechnology vol. 12, pp. 920–927 (2017)
Determining crystal structures through crowdsourcing and coursework, Nature Communications vol. 7, art. 12549 (2016)
Navigating a 2D virtual world using direct brain stimulation, Frontiers in Robotics and AI 16 November 2016
A direct brain-to-brain interface in humans, PLOS ONE November 5, 2014
Conditionally fluorescent molecular probes for detecting single base changes in double-stranded DNA, Nature Chemistry vol. 5, pp. 782–789 (2013)
Increased Diels-Alderase activity through backbone remodeling guided by Foldit players, Nature Biotechnology vol. 30, pp. 190–192 (2012)
Crystal structure of a monomeric retroviral protease solved by protein folding game players, Nature Structural & Molecular Biology vol. 18, pp. 1175–1177 (2011)