|
DAVID BALDING |
|
|
POSTAL ADDRESS: Department of |
|
Phone: Desk +44 (0)20 7594 3309 internal 43309 Mobile +44 (0)75 9025 0432 internal 50432 PA Madeline Kirk: M.Kirk@ic.ac.uk phone +44 (0)20 7594 3319
internal 43319 |
LINKS: |
SOME FUTURE EVENTS I AM
ORGANISING
- A session on Forensic Statistics at the European
Meeting of Statisticians,
- A one-week workshop with a four-week programme
on Statistical
Challenges Arising from Genome Resequencing at the Isaac Newton
Institute,
SOME COMMITTEES I AM A
MEMBER OF
- Outside
- Joint National Institute for Health Research
(NIHR) and MRC Methodology
Research Panel (2008 – 2010)
- External Advisory Group of the
I’ve also recently been part of the German Federal Ministry of Education
and Research “Long-Term Studies in Health Research" panel (2007-08).
- Within
- I chair the steering committee of the College’s
Statistical Advisory Service
PEOPLE WORKING WITH ME:
- Jean-Marie Cornuet, from the Centre de Biologie et de Gestion
des Populations at INRA, Montpellier, France, arrived Sept 2006 to
commence a 2-year Marie Curie Intra-European Fellowship with us, on a
project entitled "Statistical inference in population genetics".
|
PhD Students (see below for
past PhD students): |
Post-docs: |
|
Charlotte Vignal (part-time, GSK, started Dec 2004) |
Federico Calboli (was BBSRC now GSK, started Jan 2005) |
|
Shu-Yi Su (started Oct 2005) |
Delilah Zabaneh (BHF, started April 05) |
|
Jon White (part-time, NIAB, started April 07) |
Adaikalavan Ramasamy (EU, started Jan 08) Joint with NHLI |
|
|
Matt Nunes (EPSRC, started Aug 2008) |
FORMER POSTDOCS
- William Astle (Oct 07 – Mar 09) is now working on another project
in the Department.
- Toby Andrew
(Sept 05 – Mar 08) is now a Lecturer in Genetic Epidemiology at King’s College
London
- Marc Chadeau
(Dec 06 – Feb 08) is now working on another
project in the Department.
- Clive Hoggart (Sept 04 – Feb 08) is now working on another project
in the Department.
- David Welch, (May 2006 – Dec 2007 is now at
- In Oct 06 Taane Clark (postdoc funded by MRC
from Feb 2005) moved to the Sanger Institute, Hinxton.
- Photo of people working with me in
2000 at Reading (Grainne, Andrew, Patrick, Chiara, Karen, in Three Tuns
pub) here.
BOOKS:
- Handbook
of Statistical Genetics (3rd ed), co-edited by myself, Martin Bishop
and Chris Cannings (Wiley, 2007).
- Corrections and comments, and a glossary of
acronyms, for my book “Weight-of-evidence
for Forensic DNA Profiles” (Wiley, 2005) can be found here. Further contributions always welcome.
|
SOFTWARE
- HYPERLASSO software for simultaneous analysis of all SNPs and covariates in a GWAS can be
found at the Bargen project
webpage at the EBI. See
Hoggart et al. 2008 (above).
- FREGENE C++ software for simulating
sequence-like data in large genomic regions in entire populations (say, 1
Mb in 100K individuals, or 20 Mb in 5K individuals), under a flexible
range of scenarios for recombination (including gene conversion),
demography (population growth and structure) and selection (directional
and balancing) is available from the Bargen project webpage at the
EBI. See
Hoggart et al, Genetics, 2007 and Chadeau-Hyam, BMC Bioinformatics (full references
above).
- HAPCLUSTER software for confirming and
fine-mapping genetic associations in candidate regions, using haplotype clustering,
is available from Thomas Mailund's homepage. The original R code described in
Waldron, Whittaker and Balding (2006) only analysed phased haplotype data,
and implemented a general risk model (separate risk for each genotype at
the postulated causal locus).
Thomas has recoded it in C++ and extended it to handle unphased
genotype data, to output the Bayes Factor assessing the evidence against
the null hypothesis of no association, and to implement an allelic disease
model. The latter should give more
power for near-multiplicative disease risks, but may be affected by
deviations from Hardy-Weinberg equilibrium. The latest version (2.1.5) also allows
unphenotyped individuals, to facilitate imputation e.g. from HapMap
individuals.
- BAYESFST software for Bayesian hierarchical inference for Fst, described in Theoretical Population Biology,
63 (3): 221-230, 2003 and Molecular Ecology, 13: 969-980, 2004, is available here. - MAC5 software for phylogenetic
inference, described in McGuire, Denham & Balding (2001a,b) may be
downloaded from here.
- C programs described in Ayres & Balding, Heredity, 1998, and Ayres &
Balding, Genetics, 2001,
are available here.
- BATWING software, a development of
that described in Wilson & Balding, Genetics,1998,
may be downloaded from Ian
Wilson's home page.
|
PROFESSIONAL
SOCIETIES: |
JOURNALS: |
|
Fellow
of the Royal Statistical Society (member
of Council 1999-2004). |
AE
of International Statistical Review (1999 – 2005) |
|
Member
of the International Statistical Institute. |
AE
of Biostatistics (2000 – 2004) |
|
Member of the International
Biometric Society (British & Irish President 2006-08) |
AE
of Human Genomics (2003 – 2006) |
|
Member
of the International
Genetic Epidemiology Society |
AE
of Annals
of Human Genetics (2004 – ) |
BACKGROUND:
- 2001 - present. Professor of Statistical
Genetics at
- 1997 - 2001. Professor of Applied Statistics at
the University of Reading.
- 1989 - 1996. Lecturer and Senior Lecturer in
Probability and Statistics, Queen
Mary & Westfield College,
- 1988 - 1989. Junior Lecturer in Mathematical
Statistics, University of Oxford, and
Lecturer in Mathematics, Lady Margaret
Hall,
- 1985 - 1988. D.Phil. in Mathematics, University of Oxford.
- 1984. Research Assistant, Hunter Health
Statistics Unit, University
of Newcastle,
- 1980 - 1983. B. Math., University of Newcastle,
PAST PhDSTUDENTS:
- Dr David Wright (EPSRC, 1990 – 1995). Now Senior Statistical Assessor and
Scientific Advice Coordinator at Medicines and Healthcare products Regulatory Agency,
- Dr Karen Ayres (EPSRC,
1995 – 1998). Now Lecturer in
Applied Statistics,
- Dr Martyn Byng (BBSRC, 1997 – 2001). Now Senior Technical Consultant at NAG,
- Jacky Civil (BBSRC/GSK,
2000 – 2004; did not submit). Now
with Data Sciences
Group at Unilever, Beds
- Dr Lianne Mayor
(MRC, 2002 – 2006). Now at
Deloitte, Reading.
- Dr Ed Waldron (BBSRC/GSK, 2003-2007). Now Statistician at Takeda R&D,
- Paul O’Reilly (BBSRC, 2004 – 2008). Now postdoc in our
department.
- William Astle (MRC, 2004 –
2008). Now postdoc working with me.
CONSULTINGand SHORT COURSES
I offer a statistical consulting service, primarily to lawyers. Most often I
advise on statistical aspects of the interpretation of DNA profile evidence,
but I have also provided advice on a variety of other statistical aspects of
forensic science, epidemiology and other fields.
I teach a one-day short
course on "Weight-of-evidence for forensic DNAprofiles", based
on my book
of the same name, which was last presented at UNSW,
I also co-teach a two-day
short course "Statistical Analysis
of Genetic Association Studies", which was last presented at St
Mary’s, London, on 28/29 Sept 2006.
2006
·
A tutorial on statistical methods
for population association studies, Balding DJ, Nature Reviews Genetics 7: 781-791, 2006. doi:10.1038/nrg1916
· Clinical factors and ABCB1 polymorphisms in prediction of antiepileptic drug response: a prospective cohort study, Leschziner G, Jorgensen AL, Andrew T, Pirmohamed M, Williamson PR, Marson AG, Coffey AJ, Middleditch C, Rogers J, Bentley DR, Chadwick DW, Balding DJ, Johnson MR, Lancet Neurology 5: 668–76, 2006.
·
Exon sequencing and high resolution
haplotype analysis of ABC transporter genes implicated in drug resistance,
Leschzinger G, Zabaneh D, Pirmohamed M, Owen A, Rogers J, Coffey AJ, Balding
DJ, Bentley DB & Johnson MR, Pharmacogenetics
and Genomics, 16: 439-450, 2006.
·
Discrimination of half-siblings when
maternal genotypes are known, LR Mayor & Balding DJ, Forensic Science
International, 159(2-3):
141-147, 2006. doi:10.1016/j.forsciint.2005.07.007
·
Fine mapping of disease genes via
haplotype clustering, ERB Waldron, JC Whittaker & Balding DJ, Genetic Epidemiology, 30: 170-179, 2006 Software
·
Logistic regression protects against
population structure in genetic association studies,
·
A family-based association test with
a complex phenotype, covariates and interactions: assessing CRP and lupus,
Baksh MF, Balding DJ, Vyse TJ & Whittaker JC, Annals of Human Genetics 70: 131-139, 2006.
2003-2005
·
Paternity index calculations when some
individuals share commonancestry, KL Ayres & Balding DJ, Forensic
Science International, 151(1):
101-103, 2005.
·
The impact of low-cost, genome-wide
resequencing on association studies,Balding DJ, editorial for Human Genomics, 2(2): 79-80, 2005.
·
A question of identity, Balding
DJ, Significance, 2(1):
20-23, March 2005.
·
Identifying
adaptive genetic divergence amongpopulations from genome scans, MA Beaumont
& DJB, Molecular Ecology, 13:969-980,2004. Software
·
Clustering
of protein domains in the human genome, LRMayor, KP Fleming, A Müller, DJB
& MJ Sternberg, Journal of
MolecularBiology, 340(5): 991-1004,2004.
·
Little
loss of information due to unknown phase forfine-scale LD mapping with SNP
genotype data, AP Morris, JC Whittaker
& DJB, American Journal ofHuman
Genetics, 74(5):945-953,2004.
·
Multipoint
LD mapping narrows location interval andidentifies mutation heterogeneity, A.
Morris, J. Whittaker, C-F Xu, LHosking& DJB, Proceedings of theNationalAcademy of Sciences of the USA 100(23):13442–13446,2003.
·
Gametic
phase estimation over large genomic regionsusing an adaptive window approach,
L. Excoffier, G. Laval & DJB, Human
Genomics 1(1): 7-19, 2003.
·
Handbookof
Statistical Genetics, 2nd edition, DJB, M.Bishop, & C. Cannings (Eds),
·
Inferences
from DNA data: population histories,evolutionary processes, and forensic match
probabilities, I.J. Wilson, M.E.Weale & DJB, read before the Royal
Statistical Society, November 2002, Journalof
the Royal Statistical Society
·
Likelihood-based
inference for genetic correlationcoefficients, DJB, Theoretical Population Biology,
·
Chromosome-wide
distribution of haplotype blocks andthe role of recombination hotspots, M.S.
Phillips, R. Lawrence, R.Sachidanandam, A.P. Morris, DJB, + 29 authors + L.R.
Cardon, NatureGenetics, 33:382-387,2003.
2000-2002
- Approximate Bayesian
computation in population genetics, M.A. Beaumont,
- Implications for DNA
identification arising from an analysis of Australian forensic databases,
K.L. Ayres, J. Chaseling, & DJB, Forensic
Science International, 129:
90-98, 2002.
- Coalescent theory and modeling,
DJB, pp 170-175 of Encyclopedia of
Evolution, M. Pagel ed, Oxford UP, 2002.
- Patterns of human diversity,
within and among continents, inferred from biallelic DNA polymorphisms, C.
Romualdi, DJB, I.S. Nasidze, G. Risch, M. Robichaux, S. Sherry, M.
Stoneking, M.A. Batzer & G. Barbujani, Genome Research, 12:
602-612, 2002.
- Fine scale mapping of disease
loci via shattered coalescent modelling of genealogies, A.P. Morris, J.C.
Whittaker & DJB, American Journal
of Human Genetics, 70:
686-707, 2002.
- The DNA database search controversy,
DJB, Biometrics, 58: 241-244, 2002.
- MAC5: Bayesian inference of
phylogenetic trees from DNA sequences incorporating gaps. G. McGuire, M.C.
Denham, & DJB, Bioinformatics ,
Vol 17, pp 479-480, 2001.
- Models of
evolution for DNA sequences including gaps, G. McGuire, M.C. Denham
& DJB, Molecular Biology and
Evolution, Vol 18, pp 481-490, 2001.
- Measuring gametic disequilibrium
from multi-locus data, K.L. Ayres & DJB, Genetics, Vol. 157, pp 413-423,
2001. C
programs
- Handbook of Statistical
Genetics, DJB, M. Bishop, & C. Cannings (Eds),
- Analysis of infectious disease
data from household outbreaks by Markov chain
- Bayesian
fine scale mapping of disease loci using hidden Markov models, A.P.
Morris, J.C. Whittaker & DJB, American
Journal of Human Genetics, Vol 67, pp 155-169, 2000.
- Interpreting DNA evidence: can
probability theory help? Chap. 3, pp 51-70, of Statistical Science in the Courtroom, J.L. Gastwirth
ed, Springer-Verlag, New York, 2000.
1997-1999
- When can a DNA profile be
regarded as unique? Science &
Justice, Vol. 39, pp 257-260, 1999.
- Forensic applications of
microsatellite markers. pp 198-210 of Microsatellites:
evolution and applications, D. Goldstein and C. Schlotterer
eds, Oxford UP, 1999.
- Genealogical
inference from microsatellite data . I.J. Wilson and DJB, Genetics, 150, pp 499-510, 1998.
- Measuring departures from
Hardy-Weinberg: a Markov Chain Monte Carlo method for estimating the
inbreeding coefficient. K.L. Ayres and DJB, Heredity, 80, pp 769-777, 1998.
- Inferring coalescence times
from DNA sequence data. Simon Tavaré, DJB, R.C. Griffiths and Peter
Donnelly, Genetics 145 pp
505-518, 1997.
- Significant genetic
correlations among Caucasians at forensic DNA loci. DJB and R.A. Nichols Heredity 78, pp 583-589, 1997.
- Errors and misunderstandings in
the second NRC report. Jurimetrics,
37, pp 469-476, 1997.
- The design of pooling
experiments for screening a clone map. DJB and D.C. Torney, Fungal Genetics and Biology, 21, pp
302-307, 1997.
1994-1996
- Optimal pooling designs with
error detection. DJB & D.C. Torney, J.
Comb. Th. A 74, pp 131-140, 1996.
- Evaluating DNA profile evidence
when the suspect is identified through a database search. DJB & P.
Donnelly, J. Forensic Sci.,
41, pp 603-607, 1996.
- Population genetics of STR loci
in Caucasians. DJB, M. Greenhalgh & R.A. Nichols, Int. J. Legal Med., 108, pp 300-305,
1996.
- Estimating the age of the
common ancestor of men from the ZFY intron. P. Donnelly, S. Tavaré, DJB
& R. Griffiths, Science,
272, pp 1357-1359, 1996.
- A comparative survey of
non-adaptive pooling designs, pp 133-154 of "Genetic mapping and DNA
sequencing", IMA Volumes in
Mathematics and its Applications, T.P. Speed & M.S.
Waterman eds,
- Inference in forensic
identification. DJB & P. Donnelly, J.
Roy. Statist. Soc. A 158, 1995, pp 21-53; Discussion paper,
read to the Society April 1994.
- Efficient pooling designs for
library screening. W.J. Bruno, E. Knill, D.C. Bruce, DJB, N.A. Doggett,
W.W. Sawhill, R.L. Stallings, C.C. Whittaker & D.C. Torney, Genomics 26, pp 21-30, 1995.
- A method for quantifying
differentiation between populations at multi-allelic loci and its
implications for investigating identity and paternity. DJB & R.A.
Nichols, Genetica 96, pp
3-12, 1995. ERRATUM: Table 2 of this article contains an error: in
case Mother = AA, Alleged Father = AB, and Child = AB the 2 in the
numerator should be deleted, so that the correct LR is 2(F+(1-F)pB)/(1+3F). This correction is now published in the
journal: GENETICA 133(1) May 2008.
- Estimating products in forensic
identification using DNA profiles. DJB, J.
Amer. Statist. Assoc. 90, pp 839-844, 1995.
- Inferring identity from DNA
profile evidence. DJB & P. Donnelly, Proc. Natl. Acad. Sci. USA 92, pp 11741-11745, 1995.
- DNA profile match probability
calculation: how to allow for population stratification, relatedness,
database selection and single bands. DJB & R.A. Nichols, Forensic Sci. Inter., 64, pp
125-140, 1994.
- How convincing is DNA
evidence?. DJB & P. Donnelly, Nature,
368, pp 285-286, 24 March 1994.
- Design and analysis of
chromosome physical mapping experiments. DJB, Phil. Trans. Roy. Soc. B 244, pp 329-335, 1994.
- The prosecutor's fallacy and DNA
evidence. DJB & P. Donnelly, Crim.
Law Rev., October 1994, pp 711-721.
1985 - 1993
- Computations for mapping
genomes with clones. C.C. Whittaker, M.O. Mundt, V. Faber, DJB, R.L.
Dougherty, R.L. Stallings, S.W. White & D.C. Torney. Int. J. Genome Res., 1, pp 195-226,
1993.
- Detecting gene conversion:
Primate visual pigment genes. DJB & R.A. Nichols, & D. Hunt. Proc. Roy. Soc. B 249, pp 275-280,
1992.
- Effects of population structure
on DNA fingerprint analysis in forensic science. R.A. Nichols & DJB, Heredity, 66 pp 297-302, 1991.
- Statistical analysis of
fingerprint data for ordered clone physical mapping of human chromosomes.
DJB & D.C. Torney, Bull. Math.
Biol. 53, pp 853-879, 1991.
- Diffusion-controlled reactions
in one dimension: Exact solutions and deterministic approximations. DJB
& N.J.B. Green, Phys. Rev.
A 40, pp 4585-4592, 1989.
- Invasion processes and binary
annihilation in one dimension. DJB, P. Clifford & N.J.B. Green. Phys. Lett. A 126, pp 481-483, 1988.
- Diffusion-reaction in one
dimension. DJB, J. Appl. Prob.
25, pp 733-743, 1988.
- Risk factors and heart disease
mortality. H. Alexander, DJB, A. Dobson, R. Gibberd, D. Lloyd & S.
Leeder, Med. J. Aust. 144,
pp 20-22, 1986.
- A mathematical model of
tumour-induced capillary growth. DJB & D.L.S. McElwain. J. Theor. Biol. 114, pp 53-73, 1985.