A Sense of Self for Unix Processes. - Stephanie Forrest; Steven A. Hofmeyr; Anil Somayaji; Thomas A. Longstaff (S&P, 1996)

Principles of a computer immune system. - Anil Somayaji; Steven A. Hofmeyr; Stephanie Forrest (NSPW, 1997)

Computer Immunology. - Stephanie Forrest; Steven A. Hofmeyr; Anil Somayaji (Commun. ACM, 1997)

Intrusion Detection via System Call Traces. - Andrew P. Kosoresow; Steven A. Hofmeyr (IEEE Softw., 1997)

Intrusion Detection Using Sequences of System Calls. - Steven A. Hofmeyr; Stephanie Forrest; Anil Somayaji (J. Comput. Secur., 1998)

Architecture for an Artificial Immune System. - Steven A. Hofmeyr; Stephanie Forrest (Evol. Comput., 2000)

Why Today's Security Technologies Are So Inadequate: History, Implications, and New Approaches. - Steven A. Hofmeyr (Inf. Secur. J. A Glob. Perspect., 2003)

A New Approach to Security: Learning from Immunology. - Steven A. Hofmeyr (Inf. Secur. J. A Glob. Perspect., 2003)

The implications of immunology for secure systems design. - Steven A. Hofmeyr (Comput. Secur., 2004)

Host intrusion prevention: Part of the operating system or on top of the operating system? - Steven A. Hofmeyr (Comput. Secur., 2005)

Why Today. - Steven A. Hofmeyr (Information Security Management Handbook, 6th ed., 2007)

Runtime optimization of vector operations on large scale SMP clusters. - Costin Iancu; Steven A. Hofmeyr (PACT, 2008)

The Evolution of System-Call Monitoring. - Stephanie Forrest; Steven A. Hofmeyr; Anil Somayaji (ACSAC, 2008)

Oversubscription on multicore processors. - Costin Iancu; Steven A. Hofmeyr; Filip Blagojevic; Yili Zheng (IPDPS, 2010)

Load balancing on speed. - Steven A. Hofmeyr; Costin Iancu; Filip Blagojevic (PPoPP, 2010)

Characterizing the Performance of Parallel Applications on Multi-socket Virtual Machines. - Khaled Z. Ibrahim; Steven A. Hofmeyr; Costin Iancu (CCGRID, 2011)

Tessellation operating system: Building a real-time, responsive, high-throughput client OS for many-core architectures. - Juan A. Colmenares; Sarah Bird; Gage Eads; Steven A. Hofmeyr; Albert Kim; Rohit Poddar; Hilfi Alkaff; Krste Asanovic; John Kubiatowicz (Hot Chips Symposium, 2011)

Juggle: proactive load balancing on multicore computers. - Steven A. Hofmeyr; Juan A. Colmenares; Costin Iancu; John Kubiatowicz (HPDC, 2011)

Optimized pre-copy live migration for memory intensive applications. - Khaled Z. Ibrahim; Steven A. Hofmeyr; Costin Iancu; Eric Roman (SC, 2011)

Modeling Internet-Scale Policies for Cleaning up Malware. - Steven A. Hofmeyr; Tyler Moore 001; Stephanie Forrest; Benjamin Edwards; George Stelle (WEIS, 2011)

Beyond the blacklist: modeling malware spread and the effect of interventions. - Benjamin Edwards; Tyler Moore 001; George Stelle; Steven A. Hofmeyr; Stephanie Forrest (NSPW, 2012)

Internet Topology over Time - Benjamin Edwards; Steven A. Hofmeyr; George Stelle; Stephanie Forrest (CoRR, 2012)

Tessellation: refactoring the OS around explicit resource containers with continuous adaptation. - Juan A. Colmenares; Gage Eads; Steven A. Hofmeyr; Sarah Bird; Miquel Moretó; David Chou; Brian Gluzman; Eric Roman; Davide B. Bartolini; Nitesh Mor; Krste Asanovic; John Kubiatowicz (DAC, 2013)

Juggle: addressing extrinsic load imbalances in SPMD applications on multicore computers. - Steven A. Hofmeyr; Juan A. Colmenares; Costin Iancu; John Kubiatowicz (Clust. Comput., 2013)

The Case for Partitioning Virtual Machines on Multicore Architectures. - Khaled Z. Ibrahim; Steven A. Hofmeyr; Costin Iancu (IEEE Trans. Parallel Distributed Syst., 2014)

Analyzing and Modeling Longitudinal Security Data: Promise and Pitfalls. - Benjamin Edwards; Steven A. Hofmeyr; Stephanie Forrest; Michel van Eeten (ACSAC, 2015)

HipMer: an extreme-scale de novo genome assembler. - Evangelos Georganas; Aydin Buluç; Jarrod Chapman; Steven A. Hofmeyr; Chaitanya Aluru; Rob Egan; Leonid Oliker; Daniel Rokhsar; Katherine A. Yelick (SC, 2015)

Time-Sharing Redux for Large-Scale HPC Systems. - Steven A. Hofmeyr; Costin Iancu; Juan A. Colmenares; Eric Roman; Brian Austin (HPCC/SmartCity/DSS, 2016)

Hype and heavy tails: A closer look at data breaches. - Benjamin Edwards; Steven A. Hofmeyr; Stephanie Forrest (J. Cybersecur., 2016)

Performance Characterization of De Novo Genome Assembly on Leading Parallel Systems. - Marquita Ellis; Evangelos Georganas; Rob Egan; Steven A. Hofmeyr; Aydin Buluç; Brandon Cook 001; Leonid Oliker; Katherine A. Yelick (Euro-Par, 2017)

The UPC++ PGAS library for Exascale Computing. - John Bachan; Dan Bonachea; Paul Hargrove; Steven A. Hofmeyr; Mathias Jacquelin; Amir Kamil; Brian van Straalen; Scott B. Baden (PAW@SC, 2017)

MerBench: PGAS Benchmarks for High Performance Genome Assembly. - Evangelos Georganas; Marquita Ellis; Rob Egan; Steven A. Hofmeyr; Aydin Buluç; Brandon Cook 001; Leonid Oliker; Katherine A. Yelick (PAW@SC, 2017)

Extreme-Scale De Novo Genome Assembly. - Evangelos Georganas; Steven A. Hofmeyr; Rob Egan; Aydin Buluç; Leonid Oliker; Daniel Rokhsar; Katherine A. Yelick (CoRR, 2017)

Power Consumption Models for Multi-Tenant Server Infrastructures. - Matteo Ferroni; Andrea Corna; Andrea Damiani; Rolando Brondolin; Juan A. Colmenares; Steven A. Hofmeyr; John Kubiatowicz; Marco D. Santambrogio (ACM Trans. Archit. Code Optim., 2017)

Energy-efficient Application Resource Scheduling using Machine Learning Classifiers. - Connor Imes; Steven A. Hofmeyr; Henry Hoffmann (ICPP, 2018)

A Parallel, Energy Efficient Hardware Architecture for the merAligner on FPGA Using Chisel HCL. - Lorenzo Di Tucci; Davide Conficconi; Alessandro Comodi; Steven A. Hofmeyr; David Donofrio; Marco D. Santambrogio (IPDPS Workshops, 2018)

Extreme scale de novo metagenome assembly. - Evangelos Georganas; Rob Egan; Steven A. Hofmeyr; Eugene Goltsman; Bill Arndt; Andrew Tritt; Aydin Buluç; Leonid Oliker; Katherine A. Yelick (SC, 2018)

Enabling power-awareness for the Xen hypervisor. - Matteo Ferroni; Juan A. Colmenares; Steven A. Hofmeyr; John Kubiatowicz; Marco D. Santambrogio (SIGBED Rev., 2018)

UPC++: A High-Performance Communication Framework for Asynchronous Computation. - John Bachan; Scott B. Baden; Steven A. Hofmeyr; Mathias Jacquelin; Amir Kamil; Dan Bonachea; Paul H. Hargrove; Hadia Ahmed (IPDPS, 2019)

GPU accelerated partial order multiple sequence alignment for long reads self-correction. - Francesco Peverelli; Lorenzo Di Tucci; Marco D. Santambrogio; Nan Ding 006; Steven A. Hofmeyr; Aydin Buluç; Leonid Oliker; Katherine A. Yelick (IPDPS Workshops, 2020)

LOGAN: High-Performance GPU-Based X-Drop Long-Read Alignment. - Alberto Zeni; Giulia Guidi; Marquita Ellis; Nan Ding 006; Marco D. Santambrogio; Steven A. Hofmeyr; Aydin Buluç; Leonid Oliker; Katherine A. Yelick (IPDPS, 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)

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)

Spatially distributed infection increases viral load in a computational model of SARS-CoV-2 lung infection. - Melanie E. Moses; Steven A. Hofmeyr; Judy L. Cannon; Akil Andrews; Rebekah Gridley; Monica Hinga; Kirtus G. Leyba; Abigail Pribisova; Vanessa Surjadidjaja; Humayra Tasnim; Stephanie Forrest (PLoS Comput. Biol., 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)

Singleton Sieving: Overcoming the Memory/Speed Trade-Off in Exascale κ-mer Analysis. - Hunter McCoy; Steven A. Hofmeyr; Katherine A. Yelick; Prashant Pandey 001 (ACDA, 2023)

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)

High-Performance Filters for GPUs. - Hunter McCoy; Steven A. Hofmeyr; Katherine A. Yelick; Prashant Pandey 001 (PPoPP, 2023)

SIMCoV-GPU: Accelerating an Agent-Based Model for Exascale. - Kirtus G. Leyba; Steven A. Hofmeyr; Stephanie Forrest; Judy L. Cannon; Melanie E. Moses (HPDC, 2024)

Exabiome: Advancing Microbial Science through Exascale Computing. - Steven A. Hofmeyr; Aydin Buluç; Robert Riley 002; Rob Egan; Oguz Selvitopi; Leonid Oliker; Katherine A. Yelick; Migun Shakya; Brett Youtsey; Ariful Azad (Comput. Sci. Eng., 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)