Ling-Hong Hung
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Explore the profile of Ling-Hong Hung including associated specialties, affiliations and a list of published articles.
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23
Citations
424
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Recent Articles
11.
Hung L, Lloyd W, Agumbe Sridhar R, Athmalingam Ravishankar S, Xiong Y, Sobie E, et al.
Bioinformatics
. 2019 Mar;
35(20):4173-4175.
PMID: 30859176
Summary: For many next generation-sequencing pipelines, the most computationally intensive step is the alignment of reads to a reference sequence. As a result, alignment software such as the Burrows-Wheeler Aligner...
12.
Zhang P, Hung L, Lloyd W, Yeung K
Gigascience
. 2018 Aug;
7(8).
PMID: 30085034
Background: Using software containers has become standard practice to reproducibly deploy and execute biomedical workflows on the cloud. However, some applications that contain time-consuming initialization steps will produce unnecessary costs...
13.
Almugbel R, Hung L, Hu J, Almutairy A, Ortogero N, Tamta Y, et al.
J Am Med Inform Assoc
. 2017 Nov;
25(1):4-12.
PMID: 29092073
Objective: Bioinformatics publications typically include complex software workflows that are difficult to describe in a manuscript. We describe and demonstrate the use of interactive software notebooks to document and distribute...
14.
Hung L, Shi K, Wu M, Chad Young W, Raftery A, Yeung K
Gigascience
. 2017 Oct;
6(10):1-10.
PMID: 29020744
Inferring genetic networks from genome-wide expression data is extremely demanding computationally. We have developed fastBMA, a distributed, parallel, and scalable implementation of Bayesian model averaging (BMA) for this purpose. fastBMA...
15.
Mittal V, Hung L, Keswani J, Kristiyanto D, Lee S, Yeung K
Gigascience
. 2017 Mar;
6(4):1-6.
PMID: 28327936
Background: Software container technology such as Docker can be used to package and distribute bioinformatics workflows consisting of multiple software implementations and dependencies. However, Docker is a command line-based tool,...
16.
Hung L, Kristiyanto D, Lee S, Yeung K
PLoS One
. 2016 Apr;
11(4):e0152686.
PMID: 27045593
Reproducibility is vital in science. For complex computational methods, it is often necessary, not just to recreate the code, but also the software and hardware environment to reproduce results. Virtual...
17.
Matasci N, Hung L, Yan Z, Carpenter E, Wickett N, Mirarab S, et al.
Gigascience
. 2015 Jan;
3:17.
PMID: 25625010
The 1,000 plants (1KP) project is an international multi-disciplinary consortium that has generated transcriptome data from over 1,000 plant species, with exemplars for all of the major lineages across the...
18.
Hung L, Samudrala R
Bioinformatics
. 2014 Feb;
30(12):1774-6.
PMID: 24532722
Motivation: fast_protein_cluster is a fast, parallel and memory efficient package used to cluster 60 000 sets of protein models (with up to 550 000 models per set) generated by the...
19.
Laurenzi A, Hung L, Samudrala R
Int J Mol Sci
. 2013 Jul;
14(7):14892-907.
PMID: 23867606
Protein structure information is essential to understand protein function. Computational methods to accurately predict protein structure from the sequence have primarily been evaluated on protein sequences representing full-length native proteins....
20.
Hung L, Samudrala R
Bioinformatics
. 2012 Jun;
28(16):2191-2.
PMID: 22718788
Motivation: Accurate comparisons of different protein structures play important roles in structural biology, structure prediction and functional annotation. The root-mean-square-deviation (RMSD) after optimal superposition is the predominant measure of similarity...