Bachelor of Science in Electrical Engineering and Computer Science '15, GPA 5.0/5.0
Academic Advisor: Professor Tommi Jaakkola
The University of Cambridge, UK
Exchange Student in the Department of Engineering and Magdalene College, Top First Class Honour October 2013 - June 2014
The University of Hong Kong, Hong Kong
Candidate for the Bachelor of Engineering in Medical Engineering and Bachelor of Business Administration in Finance, GPA 4.16/4.30 Transferred to MIT in June 2012
Li T*, Wernersson R*, Hansen RB*, et al. (2017). A scored human protein-protein interaction network to catalyze genomic information. Nature Methods, 14, 61-64.
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A scored human protein-protein interaction network to catalyze genomic information
Taibo Li, Rasmus Wernersson, Rasmus Hansen, Heiko Horn, Johnathan Mercer, Greg Slodkowicz, Christopher Workman, Olga Rigina, Kristoffer Rapacki, Hans-Henrik Stærfeldt, Søren Brunak, Thomas Jensen, Kasper Lage
Genome-scale human protein-protein interaction networks are critical to understanding cell biology and interpreting genomic data, but challenging to produce experimentally. Through data integration and quality control, we provide a scored human protein-protein interaction network (InWeb_InBioMap, or InWeb_IM) with severalfold more interactions (>500,000) and better functional biological relevance than comparable resources. We illustrate that InWeb_InBioMap enables functional interpretation of >4,700 cancer genomes and genes involved in autism.
Andersson-Rolf A, Merenda A, Mustata RC, Li T, Dietmann S, Koo B-K. (2017). Simultaneous paralogue knockout using a CRISPR-concatemer in mouse small intestinal organoids. Developmental Biology, 420(2), 271-277.
Li T, Matsushima M, Timpson W, et al. (2018). Epidemiology of bedside monitoring alarms in the neonatal intensive care unit. Journal of Perinatology. (In Press)
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Epidemiology of bedside monitoring alarms in the neonatal intensive care unit
Taibo Li, Minoru Matsushima, Wendy Timpson, Susan Young, David Miedema, Munish Gupta, Thomas Heldt
Objective
To comprehensively characterize the rates of bedside monitoring alarms by severity, signal type, and patient age and weight in a sizeable neonatal intensive care unit (NICU) population.
Methods
We retrospectively analyzed 2 294 687 alarm messages from Philips IntelliVue MP-90 bedside monitors in a convenience sample of 917 NICU patients with mean gestational age of 33.6 weeks (23.0-41.6 weeks), mean birth weight of 2 104 g (350-4 800 g), and total recording duration of 12 001 patient-days, admitted to a tertiary care facility between February 2008 and June 2013. We stratified alarms by severity, signal type, postmenstrual age (PMA), and birth weight.
Results
Only 3.6% of all alarms were critical (red alarms), while 55.0% were advisory (yellow alarms) and 41.4% were device alerts (INOPs). Over 60% of all alarms were related to the pulse plethysmogram (PPG) and 28.1% to the electrocardiogram (ECG). The average alarm rate (± SEM) was 177.1±4.9 alarms/patient-day. The alarm rate was not constant (p<0.001) across PMA, but showed a strong U-shaped distribution with a nadir at 34 weeks. Arterial blood pressure INOPs were primarily responsible for the high alarm rate at low PMA while an increase in PPG and ECG INOPs drove the rise in alarm rates above 34 weeks PMA.
Conclusions
The alarm burden in this Level III-B NICU population is very significant, resulting - on average - in one alarm per patient every eight minutes. The average alarm rate significantly underrepresents the alarm rates at low and high PMAs. Strategies for reducing the alarm burden should focus on safely reducing the high incidence of advisory alarms and device alerts.
Li T, Kim A, et al. (2018). A unified web platform for network-based analyses of genomic data. Nature Methods. (Accepted)
Abstracts accepted for conference presentations
Li T, Kim A, Battle A, Lage K. Single-cell co-expression network demonstrated superior biological signal in tissue-specific network analyses. (Program #344.) Presented at the 71st Annual Meeting of The American Society of Human Genetics; 2018 October 20; San Diego, CA.
Li T, Matsushima M, Timpson W, Young S, Gupta M, Heldt T. Epidemiology of bedside monitoring alarms in the neonatal ICU. Poster session presented at: Neonatology (NICU quality improvement). Pediatric Academic Societies Meeting; 2016 April 30; Baltimore, MD.
Li T, Cohen J, Craig M, Tsourides K, Mahmud N, Berzin T. The next endoscopic frontier: a novel computer vision program accurately identifies colonoscopic colorectal neoplasia. Poster session presented at: Endoscopy - new imaging technology. Digestive Disease Week; 2016 May 23; San Diego, CA.
Li T, Kim A, Malolepsza E, Nacu E, Tanenbaum B, Ripke S, Daly M, Schenone M, Jaffe J, Eggan K, Lage K. Human brain networks perturbed by genetics and targeted by therapeutics in psychiatric disorders. Poster session presented at: Fourth Annual Broad-ISF Cell Circuits Symposium; 2016 June 28; Cambridge, MA.