User profiles for Jeffrey M Yunes

Jeffrey Michael Yunes

Independent
Verified email at yunesaging.org
Cited by 2509

[HTML][HTML] A large-scale evaluation of computational protein function prediction

…, K Verspoor, A Ben-Hur, G Pandey, JM Yunes… - Nature …, 2013 - nature.com
Automated annotation of protein function is challenging. As the number of sequenced
genomes rapidly grows, the overwhelming majority of protein products can only be annotated …

[HTML][HTML] GOATOOLS: A Python library for Gene Ontology analyses

…, CJ Mungall, JM Yunes, O Botvinnik, M Weigel… - Scientific reports, 2018 - nature.com
The biological interpretation of gene lists with interesting shared properties, such as up-or
down-regulation in a particular experiment, is typically accomplished using gene ontology …

[HTML][HTML] The CAFA challenge reports improved protein function prediction and new functional annotations for hundreds of genes through experimental screens

…, M Frasca, M Notaro, G Grossi, A Petrini, M Re… - Genome biology, 2019 - Springer
Background The Critical Assessment of Functional Annotation (CAFA) is an ongoing, global,
community-driven effort to evaluate and improve the computational annotation of protein …

The structure–function linkage database

…, S Ojha, AM Schnoes, D Stryke, JM Yunes… - Nucleic acids …, 2014 - academic.oup.com
The Structure–Function Linkage Database (SFLD, http://sfld.rbvi.ucsf.edu/ ) is a manually
curated classification resource describing structure–function relationships for functionally …

Effusion: prediction of protein function from sequence similarity networks

JM Yunes, PC Babbitt - Bioinformatics, 2019 - academic.oup.com
Motivation Critical evaluation of methods for protein function prediction shows that data
integration improves the performance of methods that predict protein function, but a basic BLAST-…

[PDF][PDF] Automating Genomic Context Analysis with a Probabilistic Model of Protein Function and Relatedness

JM Yunes, PC Babbitt - biofunctionprediction.org
Prediction of protein function continues to be an active area of research. While the performance
of automated function prediction methods continues to improve, assessments of their …

Factors associated with death in critically ill patients with coronavirus disease 2019 in the US

…, D Zhu, RV Levy, Y Azzi, M Fisher, M Yunes… - JAMA internal …, 2020 - jamanetwork.com
Importance The US is currently an epicenter of the coronavirus disease 2019 (COVID-19)
pandemic, yet few national data are available on patient characteristics, treatment, and …

Association between early treatment with tocilizumab and mortality among critically ill patients with COVID-19

…, D Zhu, RV Levy, Y Azzi, M Fisher, M Yunes… - JAMA internal …, 2021 - jamanetwork.com
Importance Therapies that improve survival in critically ill patients with coronavirus disease
2019 (COVID-19) are needed. Tocilizumab, a monoclonal antibody against the interleukin 6 …

Kidney recovery and death in critically ill patients with COVID-19–associated acute kidney injury treated with dialysis: the STOP-COVID cohort study

…, D Zhu, RV Levy, Y Azzi, M Fisher, M Yunes… - American journal of …, 2022 - Elsevier
m 2 , respectively, compared with eGFR > 60 mL/min/1.73 m 2 . Oliguria at the time of KRT
initiation was also associated with nonrecovery (ORs of 2.10 [95% CI, 1.14-3.88] and 4.02 [95…

ACR Appropriateness Criteria® Pre-Irradiation Evaluation and Management of Brain Metastases

…, AD Vassil, FJ Wippold, MJ Yunes… - Journal of palliative …, 2014 - liebertpub.com
Pretreatment evaluation is performed to determine the number, location, and size of the
brain metastases and magnetic resonance imaging (MRI) is the recommended imaging …