GPU-ArraySort: A Parallel, In-Place Algorithm for Sorting Large Number of Arrays. - Muaaz Gul Awan; Fahad Saeed (ICPP Workshops, 2016)

MS-REDUCE: an ultrafast technique for reduction of big mass spectrometry data for high-throughput processing. - Muaaz Gul Awan; Fahad Saeed (Bioinform., 2016)

An Out-of-Core GPU based Dimensionality Reduction Algorithm for Big Mass Spectrometry Data and Its Application in Bottom-up Proteomics. - Muaaz Gul Awan; Fahad Saeed (BCB, 2017)

GPU-PCC: A GPU Based Technique to Compute Pairwise Pearson's Correlation Coefficients for Big fMRI Data. - Taban Eslami; Muaaz Gul Awan; Fahad Saeed (BCB, 2017)

GPU-DAEMON: GPU algorithm design, data management & optimization template for array based big omics data. - Muaaz Gul Awan; Taban Eslami; Fahad Saeed (Comput. Biol. Medicine, 2018)

Timemory: Modular Performance Analysis for HPC. - Jonathan R. Madsen; Muaaz G. Awan; Hugo Brunie; Jack Deslippe; Rahulkumar Gayatri; Leonid Oliker; Yunsong Wang; Charlene Yang; Samuel Williams 001 (ISC, 2020)

ADEPT: a domain independent sequence alignment strategy for gpu architectures. - Muaaz G. Awan; Jack Deslippe; Aydin Buluç; Oguz Selvitopi; Steven A. Hofmeyr; Leonid Oliker; Katherine A. Yelick (BMC Bioinform., 2020)

The Parallelism Motifs of Genomic Data Analysis. - Katherine A. Yelick; Aydin Buluç; Muaaz G. Awan; Ariful Azad; Benjamin Brock; Rob Egan; Saliya Ekanayake; Marquita Ellis; Evangelos Georganas; Giulia Guidi; Steven A. Hofmeyr; Oguz Selvitopi; et al. (CoRR, 2020)

Evaluating Performance and Portability of a core bioinformatics kernel on multiple vendor GPUs. - Muhammad Haseeb; Nan Ding 006; Jack Deslippe; Muaaz Gul Awan (P3HPC@SC, 2021)

Accelerating large scale de novo metagenome assembly using GPUs. - Muaaz Gul Awan; Steven A. Hofmeyr; Rob Egan; Nan Ding 006; Aydin Buluç; Jack Deslippe; Leonid Oliker; Katherine A. Yelick (SC, 2021)

Benchmarking mass spectrometry based proteomics algorithms using a simulated database. - Muaaz Gul Awan; Abdullah Gul Awan; Fahad Saeed (Netw. Model. Anal. Health Informatics Bioinform., 2021)

Understanding the Power of Evolutionary Computation for GPU Code Optimization. - Jhe-Yu Liou; Muaaz Awan; Steven A. Hofmeyr; Stephanie Forrest; Carole-Jean Wu (IISWC, 2022)

Extreme-Scale Many-against-Many Protein Similarity Search. - Oguz Selvitopi; Saliya Ekanayake; Giulia Guidi; Muaaz G. Awan; Georgios A. Pavlopoulos; Ariful Azad; Nikos Kyrpides; Leonid Oliker; Katherine A. Yelick; Aydin Buluç (SC, 2022)

Instruction Roofline: An insightful visual performance model for GPUs. - Nan Ding 006; Muaaz G. Awan; Samuel Williams 001 (Concurr. Comput. Pract. Exp., 2022)

Designing Efficient SIMD Kernels for High Performance Sequence Alignment. - Doru-Thom Popovici; Muaaz Gul Awan; Giulia Guidi; Rob Egan; Steven A. Hofmeyr; Leonid Oliker; Katherine A. Yelick (IPDPS Workshops, 2023)

TANGO: A GPU optimized traceback approach for sequence alignment algorithms. - LeAnn Lindsey; Muhammad Haseeb; Hari Sundar; Muaaz Gul Awan (SC Workshops, 2023)

Optimizing MILC-Dslash Performance on NVIDIA A100 GPU: Parallel Strategies using SYCL. - Amanda S. Dufek; Steven A. Gottlieb; Muaaz Gul Awan; Douglas Adriano Augusto; Jack Deslippe; Brandon Cook 001 (SC Workshops, 2024)

Performance Modeling and Analysis of a de Bruijn Graph Based Local Assembly Kernel on Multiple Vendor GPUs. - LeAnn M. Lindsey; Nan Ding 006; Jack Deslippe; Muaaz Awan (SC Workshops, 2024)

Evaluating the potential of disaggregated memory systems for HPC applications. - Nan Ding 006; Pieter Maris; Hai Ah Nam; Taylor L. Groves; Muaaz Gul Awan; LeAnn Lindsey; Christopher S. Daley; Oguz Selvitopi; Leonid Oliker; Nicholas J. Wright; Samuel Williams 001 (Concurr. Comput. Pract. Exp., 2024)

Evolving to Find Optimizations Humans Miss: Using Evolutionary Computation to Improve GPU Code for Bioinformatics Applications. - Jhe-Yu Liou; Muaaz Awan; Kirtus G. Leyba; Petr Sulc; Steven A. Hofmeyr; Carole-Jean Wu; Stephanie Forrest (ACM Trans. Evol. Learn. Optim., 2024)