MODBASE, a database of annotated comparative protein structure models. - Roberto Sánchez; Ursula Pieper 001; Nebojsa Mirkovic; Paul I. W. de Bakker; Edward Wittenstein; Andrej Sali (Nucleic Acids Res., 2000)

HOMSTRAD: adding sequence information to structure-based alignments of homologous protein families. - Paul I. W. de Bakker; Alex Bateman; David F. Burke; Ricardo Núñez Miguel; Kenji Mizuguchi; Jiye Shi; Hiroki Shirai; Tom L. Blundell (Bioinform., 2001)

Pandit: a database of protein and associated nucleotide domains with inferred trees. - Simon Whelan; Paul I. W. de Bakker; Nick Goldman (Bioinform., 2003)

Transferability of Tag SNPs to Capture Common Genetic Variation in DNA Repair Genes Across Multiple Populations. - Paul I. W. de Bakker; Robert R. Graham; David Altshuler; Brian E. Henderson; Christopher A. Haiman (Pacific Symposium on Biocomputing, 2006)

PANDIT: an evolution-centric database of protein and associated nucleotide domains with inferred trees. - Simon Whelan; Paul I. W. de Bakker; Emmanuel Quevillon; Nicolas Rodriguez 001; Nick Goldman (Nucleic Acids Res., 2006)

SNAP: a web-based tool for identification and annotation of proxy SNPs using HapMap. - Andrew D. Johnson; Robert E. Handsaker; Sara L. Pulit; Marcia M. Nizzari; Christopher J. O'Donnell; Paul I. W. de Bakker (Bioinform., 2008)

Use of Biological Knowledge to Inform The Analysis of Gene-Gene Interactions Involved in Modulating Virologic Failure with Efavirenz-Containing Treatment Regimens in Art-Naive Actg Clinical Trials Participants. - Benjamin J. Grady; Eric Torstenson; Paul J. McLaren; Paul I. W. de Bakker; David W. Haas; Gregory K. Robbins; Roy M. Gulick; Richard Haubrich; Heather Ribaudo; Marylyn D. Ritchie (Pacific Symposium on Biocomputing, 2011)

Fast pairwise IBD association testing in genome-wide association studies. - Buhm Han; Eun Yong Kang; Soumya Raychaudhuri; Paul I. W. de Bakker; Eleazar Eskin (Bioinform., 2014)