Publications with Alexander Dilthey, DPhil

Postdoctoral Fellow

Strain-level metagenomic assignment and compositional estimation for long reads with MetaMaps
Nature Communications, July 11, 2019
Dilthey A, Jain C, Koren S, Phillippy AM
HLA*LA - HLA typing from linearly projected graph alignments
Bioinformatics, April 3, 2019
Dilthey AT, Mentzer AJ, Carapito R, Cutland C, Cereb N, Madhi SA, Rhie A, Koren S, Bahram S, McVean G, Phillippy AM
De novo assembly of haplotype-resolved genomes with trio binning
Nature Biotechnology, October 22, 2018
Koren S, Rhie A, Walenz BP, Dilthey AT, Bickhart DM, Kingan SB, Hiendleder S, Williams JL, Smith TPL, Phillippy AM
A fast adaptive algorithm for computing whole-genome homology maps
Bioinformatics, September 1, 2018
Jain C, Koren S, Dilthey A, Phillippy AM, Aluru S
Variation in human chromosome 21 ribosomal RNA genes characterized by TAR cloning and long-read sequencing
Nucleic Acids Res, July 27, 2018
Kim JH, Dilthey AT, Nagaraja R, Lee HS, Koren S, Dudekula D, Wood III WH, Piao Y, Ogurtsov AY, Utani K, Noskov V, Shabalina SA, Schlessinger D, Phillippy AM, Larionov V
Nanopore sequencing and assembly of a human genome with ultra-long reads
Nature Biotechnology, January 29, 2018
Jain M, Koren SDilthey ATRhie APhillippy AM … & Loose M
A fast approximate algorithm for mapping long reads to large reference databases
RECOMB 2017, May 3, 2017
Jain C, Dilthey A, Koren S, Aluru S, Phillippy AM
High-Accuracy HLA Type Inference from Whole-Genome Sequencing Data Using Population Reference Graphs
PloS Comput Biol, October 28, 2016
Dilthey A, Gourraud PA, Mentzer AJ, Cereb N, Iqbal Z, McVean G
Comprehensive genome-wide evaluation of lapatinib-induced liver injury yields a single genetic signal centered on known risk allele HLA-DRB1*07:01
Pharmacogenomics J., April 16, 2016
Parham LR, Briley LP, Li L, Shen J, Newcombe PJ, King KS, Slater AJ, Dilthey A, Iqbal Z, McVean G, Cox CJ, Nelson MR, Spraggs CF
Horizontally transferred genes cluster spatially and metabolically
Biology Direct, December 21, 2015
Dilthey A, Lercher MJ
Imputation of KIR Types from SNP Variation Data
Am J Hum Genet., October 1, 2015
Vukcevic D, Traherne JA, Næss S, Ellinghaus E, Kamatani Y, Dilthey A, Lathrop M, Karlsen TH, Franke A, Moffatt M, Cookson W, Trowsdale J, McVean G, Sawcer S, Leslie S
Class II HLA interactions modulate genetic risk for multiple sclerosis
Nature Genetics, September 7, 2015
Moutsianas L … Dilthey AT … McVean G; International Multiple Sclerosis Genetics Consortium
Improved genome inference in the MHC using a population reference graph
Nature Genetics, April 27, 2015
Dilthey A, Cox C, Iqbal Z, Nelson MR, McVean G
Analysis of immune-related loci identifies 48 new susceptibility variants for multiple sclerosis
Nature Genetics, September 29, 2013
International Multiple Sclerosis Genetics Consortium (IMSGC) … Dilthey AT … McCauley JL
Multi-population classical HLA type imputation
PloS Comput Biol., February 14, 2013
Dilthey A, Leslie S, Moutsianas L, Shen J, Cox C, Nelson MR, McVean G
Genetics of gene expression in primary immune cells identifies cell type-specific master regulators and roles of HLA alleles
Nature Genetics, March 25, 2012
Fairfax BP1, Makino S, Radhakrishnan J, Plant K, Leslie S, Dilthey A, Ellis P, Langford C, Vannberg FO, Knight JC
Psoriasis patients are enriched for genetic variants that protect against HIV-1 disease
PloS Genet., February 16, 2012
Chen H, Hayashi G, Lai OY, Dilthey A, Kuebler PJ, Wong TV, Martin MP, Fernandez Vina MA, McVean G, Wabl M, Leslie KS, Maurer T, Martin JN, Deeks SG, Carrington M, Bowcock AM, Nixon DF, Liao W
Genetic risk and a primary role for cell-mediated immune mechanisms in multiple sclerosis
Nature, August 10, 2011
International Multiple Sclerosis Genetics Consortium; Wellcome Trust Case Control Consortium 2 … Dilthey A … Compston A
Multiple Hodgkin lymphoma-associated loci within the HLA region at chromosome 6p21.3
Blood, July 21, 2011
Moutsianas L, Enciso-Mora V, Ma YP, Leslie S, Dilthey A, Broderick P, Sherborne A, Cooke R, Ashworth A, Swerdlow AJ, McVean G, Houlston RS
Interaction between ERAP1 and HLA-B27 in ankylosing spondylitis implicates peptide handling in the mechanism for HLA-B27 in disease susceptibility
Nature Genetics, July 10, 2011
Evans DM … Dilthey A … Donnelly P; Australo-Anglo-American Spondyloarthritis Consortium (TASC); Wellcome Trust Case Control Consortium 2 (WTCCC2)
HLA*IMP--an integrated framework for imputing classical HLA alleles from SNP genotypes
Bioinformatics, February 7, 2011
Dilthey AT, Moutsianas L, Leslie S, McVean G
MHC variation and risk of childhood B-cell precursor acute lymphoblastic leukemia
Blood, November 8, 2010
Hosking FJ, Leslie S, Dilthey A, Moutsianas L, Wang Y, Dobbins SE, Papaemmanuil E, Sheridan E, Kinsey SE, Lightfoot T, Roman E, Irving JA, Allan JM, Taylor M, Greaves M, McVean G, Houlston RS
A genome-wide association study identifies new psoriasis susceptibility loci and an interaction between HLA-C and ERAP1
Nature Genetics, October 17, 2010
Genetic Analysis of Psoriasis Consortium & the Wellcome Trust Case Control Consortium 2 … Dilthey A … Trembath RC