nsf fellowships

FARSIDE FARSIDE at massey.ac.nz
Wed Dec 15 22:36:43 EST 1993

Hi Bionetters and Bugnetters-  I am passing on this requests for postdocs
from David Penny & Pete Lockhart-

Do you know anyone who might be interested in applying for one of these
fellowships to work with our group? We have only recently become aware
of these and unfortunately the deadline is very close. If you can bring
this email to the attention of anyone who might be interested that would
be much appreciated.

best wishes

Pete Lockhart
David Penny

              NSF and Sloan Foundation Postdoc Research
              Fellowships in Molecular evolution (1994)

We wish to encourage anyone interested in applying for these fellowships
to consider working within our group in New Zealand. To be eligible to
hold one of these fellowships in NZ the person must be a citizen of the

Three research areas in which a person would be most helpful in our
current research programme are

(a) in computational biology (computing to everybody else)
(b) in biological mathematics
(c) in molecular systematics where the person has a strong interest in
DNA sequence analysis methods

Our group consists of 2 mathematicians (Mike Hendy, Mike Steel) and 2
biologists (David Penny and Peter Lockhart) with 5 graduate students (in
biology and mathematics). The group is very active and our recent
publication list is given below. More information about our group can be
obtained by email to Peter Lockhart at FARSIDE at MASSEY.AC.NZ

Details about the fellowships (publication NSF 93-151) could be obtained
by contacting the National Science Foundation, 4201 Wilson Blvd.
Arlington, VA 22230 email BITNET:pubs at nsf.gov or INTERNET:pubs at nsf.gov

                     IS VERY CLOSE: 17 JANUARY 1994

Publication Activity of Group - 1992-1993

(Papers published and/or accepted and/or submitted since 1992.

Published or formally accepted.
D.Penny, M.D.Hendy, and M.A.Steel, 1992. Progress with evolutionary
trees. Trends in Ecology and Evolution 7: 73-79.

M.D.Hendy, 1992. The path sets of weighted partially labelled trees.
Australasian Journal of Combinatorics. 5: 277-284.

P.J.Lockhart, D.Penny, M.D.Hendy, C.J.Howe, T.J.Beanland and
A.W.D.Larkum, 1992. Controversy on chloroplast origins. FEBS Letters
301: 127-131.

P.J.Lockhart, C.J.Howe, T.J.Beanland and A.W.D.Larkum (1992)
Substitutional bias confounds inference of cyanelle origins from
sequence data. Journal of Molecular Evolution 34: 153-162.

P.J.Lockhart, T.J.Beanland, C.J.Howe and A.W.D.Larkum, 1992 Sequence of
Prochloron didemni atpBE and the inference of chloroplast origins.
Proceedings National Academy of Sciences USA 89: 2742-2746.

P.Ramadass, B.D.W.Jarvis, R.J.Corner, D.Penny and R.B.Marshall, 1992.
Genetic characterization of pathogenic Leptospira species by DNA
hybridization. International Journal of Systematic Microbiology. 42:

M.A.Steel, M.D.Hendy and D.Penny, 1992. Significance of the length of
the shortest tree. Journal of Classification 9: 71-90.

M.A.Steel, 1992. The complexity of reconstructing trees from qualitative
characters and subtrees. Journal of Classification 9: 91-116.

R.E.Hickson, D.Penny, and D.B.Scott, 1992. Molecular systematics and
evolution in New Zealand: applications to cryptic skink species. New
Zealand Journal of Zoology. 19: 33-44.

A.Dress and M.A.Steel, 1992. Convex tree realizations of partitions.
Applied Mathematics Letters 5: 3-6.

Howe C.J., Beanland T.J., Larkum A.W.D. and Lockhart P.J. (1992) Plastid
Origins. Trends in Ecology and Evolution 7: 378-383

M.A.Steel, M.D.Hendy, L.A.Szkely and P.Erds, 1992. Spectral analysis
and a closest tree method for genetic sequences. Applied Mathematics
Letters 5:63-67.

L.A.Szkely, P.Erds, M.A.Steel, and D.Penny, 1993. A Fourier inversion
formula for evolutionary trees. Applied Mathematics Letters 6(2) 13-17.

M.A.Steel 1993 Distributions on bicoloured binary trees arising from the
principle of parsimony. Discrete Applied Mathematics 41: 245-261.

M.D.Hendy and D.Penny, 1993. Limitations to accurate molecular
phylogeny, In "Advances in Computer Methods for Systematic Biology:
Artificial intelligence, databases, computer vision". (R.Fortuner, ed.)
(Pp 81-90) Johns Hopkins University Press, Baltimore.

M.A.Steel, L.A.Szkely and P.Erds, 1993. Fourier calculus on
evolutionary trees. Advances Applied Mathematics 14: 200-216.

M.A.Steel and D.Penny, 1993. Distributions of tree comparison metrics.
Systematic Biology 42: 126-141.

M.A.Steel, 1993. Decompositions of leaf-coloured binary trees. Advances

Applied Mathematics 14: 1-24.

M.D.Hendy and D.Penny, 1993. Spectral analysis of phylogenetic data.
Journal of Classification 10: 5-24.

P.J.Lockhart and Penny D. 1993. The problem of GC content, evolutionary
trees and the origins of Chl-a/b photosynthetic organelles: Are the
prochlorophytes a eubacterial model for higher plant photosynthesis.
Photosynthesis Research III 499-505.

M.A.Charleston, M.D.Hendy and D.Penny. 1993. Neighbour Joining uses the
optimal weight for net divergence. Molecular Phylogeny and Evolution 2:

M.A.Steel, P.J.Lockhart and D.Penny. Confidence in evolutionary trees
from biological sequence data. Nature 364: 440-442

D.Penny, E.E.Watson and M.A.Steel. 1993. Trees from languages and genes
are very similar. Systematic Biology 42: 382-384.

J.J.Bull, J.P.Huelsenbeck, C.W.Clifford, D.W.Swofford and P.J.Waddell
1993. Partitioning and combining data in phylogenetic analysis.
Systematic Biology 42: 384-397.

C.J.Howe, Beanland T.J., Larkum A.W.D. and Lockhart P.J. 1993. Plastid
Phylogeny and the problem of biased base composition. In "Symbiogenesis,
Prochlorophytes and the origins of Plastids" ed. Lewin R.A. Chapman and
Hall, New York.

P.J.Lockhart, Penny D, Hendy, M. D. and Larkum A W D. 1993. Is
Prochlorothrix hollandica the best eubacterial model for eukaryote Chl-
a/b photosynthesis. Photosynthesis Research 37: 61-68.

L.A.Szkely, P.Erds and M.A.Steel, 1993. The combinatorics of
evolutionary trees - a survey. Journal of Combinatorial Mathematics and
Combinatorial Computing (in press)

H.-J.Bandelt, and M.A.Steel, 1993. Symmetric matrices representable by
weighted trees over a cancellative Abelian monoid. S.I.A.M. Journal of
Discrete Mathematics (in press)

G.R.Wood and M.A.Steel, 1993. On a problem of Andersson and Perlman.
Statistics and Probability Letters (in press)

M.A.Steel and J.W.Moon, 1993. A limiting distribution for parsimoniously
bicoloured trees. Applied Mathematics Letters 6(4) 5-8.

M.A.Steel, L.A.Szkely, P.Erds and P.J.Waddell. 1993. A complete family
of phylogenetic invariants for any number of taxa. New Zealand Journal
of Botany 31: 289-296.

M.D.Hendy and M.A.Charleston. 1993. Hadamard conjugation: a versatile
tool for modelling nucleotide sequence evolution. New Zealand Journal of
Botany 31: 231-237.

D.Penny, E.E Watson, R.E.Hickson, and P.J.Lockhart. 1993. Some recent
progress with methods for evolutionary trees. New Zealand Journal of
Botany 31: 275-288.

M.A.Steel and T.Warnow. 1993. The Kaikoura tree theorems: Computing the
maximum agreement subtree. Information Processing Letters 48: 77-82.

M.A.Steel, M.D.Hendy and D.Penny. 1993. Parsimony can be consistent!
Systematic Biology (in press)

P.J.Waddell, D.Penny, M.D.Hendy and G.C.Arnold. 1993. Variance-
covariances matrices for evolutionary trees using Hadamard transforms.
Molecular Biology and Evolution (in press).

M.A.Steel. 1993. Recovering a tree from the leaf colorations it
generates under a Markov model. Applied Mathematics Letters (in press).

M.A.Steel and M.A.Charleston. 1993. Five surprising properties of
parsimoniously colored trees. Bulletin of Mathematical Biology (in

M.D.Hendy, D.Penny, and M.A.Steel, 1994. Discrete Fourier spectral
analysis of evolution. Proceedings of National Academy of Science USA.
(in press).

M.A.Charleston, M.D.Hendy and D.Penny. 1994. The effects of sequence
length, tree topology and number of taxa on the performance of
phylogenetic methods. Computational Biology (in press).

P.J.Waddell and D.Penny. 1994. Evolutionary trees of apes and humans
from DNA sequences. In "Handbook of Human Symbolic Evolution" (ed.
A.Lock, and C.R.Peters) Clarendon Press (in press).

D.Penny, P.J.Lockhart, M.A.Steel and M.D.Hendy. 1994. The role of models
in reconstructing evolutionary trees. in "Models in Phylogeny"
(D.Siebert, ed), Oxford University Press, Oxford.

P.J.Lockhart, M.A.Steel, M.A.Hendy and D.Penny 1994. Recovering
evolutionary trees under a more realistic model of sequence evolution.
(Molecular Biology and Evolution, in press)

D.Penny. 1994 Darwinian Evolution: Molecular Phylogeny: Molecular
Evolution (with E.Terzaghi) plus 20 short entries. Encyclopedia of
Molecular Biology, Blackwells, London.

Manuscripts submitted
D.Penny and M.A.Steel. The Great Deluge algorithm and evolutionary
Steel,M.A., M.D.Hendy and D.Penny.  Invertible models of sequence
Z.Zabinski, G.Wood, M.A.Steel and B.Baritompa. Pure adaptive search for
finite global optimization.
B.Baritompa and M.A.Steel. A bound on the first hitting time for
directionally biased random sequences.
F.R. McMorris, and M.A Steel. The complexity of the median procedure for

binary trees.
M.A.Steel, L.A.Szekely and M.D.Hendy. Reconstructing trees from
sequences whose sites evolve at variable rates.
M.A.Steel. The maximum likelihood point for a phylogenetic trees is not

CHRIS SIMON                      PHONE: 203-486-4640
ECOL. EVOL. BIOLOGY U-43           FAX: 203-486-6364

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