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Page 1
ADEPT: a domain independent sequence alignment strategy for gpu architectures.
BMC Bioinformatics. 2020 Sep 15;21(1):406. doi: 10.1186/s12859-020-03720-1.
BMC Bioinformatics. 2020.
PMID: 32933482
Free PMC article.
Benchmarking mass spectrometry based proteomics algorithms using a simulated database.
Awan MG, Awan AG, Saeed F.
Awan MG, et al.
Netw Model Anal Health Inform Bioinform. 2021;10:23. doi: 10.1007/s13721-021-00298-3. Epub 2021 Mar 26.
Netw Model Anal Health Inform Bioinform. 2021.
PMID: 34012763
Free PMC article.
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MaSS-Simulator: A Highly Configurable Simulator for Generating MS/MS Datasets for Benchmarking of Proteomics Algorithms.
Awan MG, Saeed F.
Awan MG, et al.
Proteomics. 2018 Oct;18(20):e1800206. doi: 10.1002/pmic.201800206. Epub 2018 Sep 28.
Proteomics. 2018.
PMID: 30216669
Free PMC article.
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GPU-DAEMON: GPU algorithm design, data management & optimization template for array based big omics data.
Awan MG, Eslami T, Saeed F.
Awan MG, et al.
Comput Biol Med. 2018 Oct 1;101:163-173. doi: 10.1016/j.compbiomed.2018.08.015. Epub 2018 Aug 16.
Comput Biol Med. 2018.
PMID: 30145436
Free PMC article.
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An Out-of-Core GPU based dimensionality reduction algorithm for Big Mass Spectrometry Data and its application in bottom-up Proteomics.
Awan MG, Saeed F.
Awan MG, et al.
ACM BCB. 2017 Aug;2017:550-555. doi: 10.1145/3107411.3107466.
ACM BCB. 2017.
PMID: 28868521
Free PMC article.
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MS-REDUCE: an ultrafast technique for reduction of big mass spectrometry data for high-throughput processing.
Awan MG, Saeed F.
Awan MG, et al.
Bioinformatics. 2016 May 15;32(10):1518-26. doi: 10.1093/bioinformatics/btw023. Epub 2016 Jan 21.
Bioinformatics. 2016.
PMID: 26801958
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