Minimal Comparison Sorting by Choosing Most Efficient Comparisons. - Henry S. Warren Jr. (Inf. Process. Lett., 1973)

A Modification of Warshall's Algorithm for the Transitive Closure of Binary Relations. - Henry S. Warren Jr. (Commun. ACM, 1975)

Functions Realizable with Word-Parallel Logical and Two's-Complement Addition Instructions. - Henry S. Warren Jr. (Commun. ACM, 1977)

Static Main Storage Packing Problems. - Henry S. Warren Jr. (Acta Informatica, 1978)

Three Simple Node List Algorithms. - Henry S. Warren Jr. (Comput. Lang., 1978)

Optimization of Inductive Assertions. - Henry S. Warren Jr. (1980)

Modulus Division on a Two's Complement Machine. - Henry S. Warren Jr.; A. Shawhan Fox; Peter W. Markstein (Inf. Process. Lett., 1981)

Instruction Scheduling for the IBM RISC System/6000 Processor. - Henry S. Warren Jr. (IBM J. Res. Dev., 1990)

Blue Gene. - Henry S. Warren Jr. (ISHPC, 2000)

Demonstrating the scalability of a molecular dynamics application on a Petaflop computer. - George S. Almási; Calin Cascaval; José G. Castaños; Monty Denneau; Wilm E. Donath; Maria Eleftheriou; Mark Giampapa; C. T. Howard Ho; Derek Lieber; José E. Moreira; Dennis M. Newns; Marc Snir; et al. (ICS, 2001)

Blue Gene: A vision for protein science using a petaflop supercomputer. - Frances E. Allen; George S. Almási; Wanda Andreoni; Daniel K. Beece; Bruce J. Berne; Arthur A. Bright; José R. Brunheroto; Calin Cascaval; José G. Castaños; Paul Coteus; Paul Crumley; Alessandro Curioni; et al. (IBM Syst. J., 2001)

Evaluation of a Multithreaded Architecture for Cellular Computing. - Calin Cascaval; José G. Castaños; Luis Ceze; Monty Denneau; Manish Gupta 002; Derek Lieber; José E. Moreira; Karin Strauss; Henry S. Warren Jr. (HPCA, 2002)

Demonstrating the Scalability of a Molecular Dynamics Application on a Petaflops Computer. - George S. Almási; Calin Cascaval; José G. Castaños; Monty Denneau; Wilm E. Donath; Maria Eleftheriou; Mark Giampapa; C. T. Howard Ho; Derek Lieber; José E. Moreira; Dennis M. Newns; Marc Snir; et al. (Int. J. Parallel Program., 2002)

Dissecting Cyclops: a detailed analysis of a multithreaded architecture. - George Almási 001; Calin Cascaval; José G. Castaños; Monty Denneau; Derek Lieber; José E. Moreira; Henry S. Warren Jr. (SIGARCH Comput. Archit. News, 2003)

Hacker's Delight, Second Edition. - Henry S. Warren Jr. (Pearson Education, 2013)