FPC takes as input a set of clones and their restriction fragments
(called Bands) and assembles the clones into contigs; for more information,
see summary.
FPC contributions are
by the GSC, BCGSC, Sanger Centre, Clemson University, and University
of Arizona.
Latest release: FPC V9.4 (21 Mar 2011) support for sequence based fingerprints (see details)
FPC binaries, tutorials, documentation, and source code have been collected into a
single download package.
View the Readme.
van Oeveren J, de Ruiter M, Jesse T, van der Poel H, Tang J, Yalcin F, Janssen A, Volpin H, Stormo KE, Bogden R, van Eijk MJ, Prins M (2011).
Sequence-based physical mapping of complex genomes by whole genome profiling. Genome Res., epub Feb. 1, 2011.
Download
Nelson, W. and C. Soderlund (2009). Integrating Sequence with FPC Fingerprinted Maps.
Nucleic Acids Research 1-11 doi:10.1093/nar/gkp034 Download
Nelson, W., J. Dvorak, M. Luo, J. Messing, R. Wing, and C. Soderlund (2006). Efficacy of clone fingerprinting methodologies. Genomics 89:160-165.
Download
Nelson, W, A Bharti, E Butler, F Wei, G Fuks, H Kim,
R Wing, J Messing, and C Soderlund (2005).
Whole-Genome Validation of High-Information-Content Fingerprinting. Plant Physiology
139:27-38.
Download
Nelson, W. and C. Soderlund (2005). Software for restriction fragment physical
maps. K. Meksem, G. Kahl (ed) The Handbook of Genome Mapping: Genetic
and Physical Mapping, Wiley-VCH. pp. 285-306.
Download
Engler,
F., J. Hatfield, W. Nelson, and C. Soderlund (2003). Locating sequence
on FPC maps and selecting a minimal tiling path. Genome Research
13:2152:2163. Download
Supplemental
Engler,
F. and C. Soderlund (2002). Software for Physical Maps. In Ian Dunham
(ed) Genomic Mapping and Sequencing, Horizon Press, Genome
Technology series. Norfolk, UK, pp. 201-236.
Soderlund,
C., F. Engler, J. Hatfield, S. Blundy, M. Chen, Y. Yu, and R. Wing (2002).
Mapping sequence to Rice FPC. In P. Wang, J. Wang and C. Wu (ed)
Computational Biology and Genome Informatics. World
Scientific Publishing. pp 59-79.
Download.
Ness,
S.R., Terpstra, W., Krzywinski, M., Marra M., Jones, A., and Ness,
S.J.M. (2002). Assembly of fingerprint contigs: parallelized FPC.
BioInformatics 18:484-485.
Chen,
M., Presting, G., Barbazuk, W., Goicoechea, J., Blackmon, B., Fang,
G., Kim, H., Frisch, D., Yu, Y., Higingbottom, S., Phimphilai, J.,
Phimphilai, D., Thurmond, S., Gaudette, B., Li, P., Liu, J., Hatfield,
J., Sun, S., Farrar, K., Henderson, C., Barnett, L., Costa, R.,
Williams, B., Walser, S., Atkins, M., Hall, C., Bancroft, I., Salse,
J., Regad, F., Mohapatra, T., Singh, N., Tyagi, A., Soderlund, C.,
Dean, R., and Wing, R. (2002). An integrated physical and genetic
map of the rice genome. Plant Cell.
The
International Human Genome Mapping Consortium (2001) A physical
map of the human genome, Nature 409:934-941
Download.
Soderlund,
C., S. Humphrey, A. Dunhum, and L. French (2000). Contigs built
with fingerprints, markers and FPC V4.7. Genome Research
10:1772-1787.
Download.
Soderlund,
C., S. Gregory and I. Dunham (1998). Sequence ready clones. In Bishop,
M.J. (ed) Guide to Human Genome Computing, Academic Press.
Mungal,
A., S. Humphray, S. Ranby, C. Edwards, R. Heathcott, C. Clee, E.
Holloway, A. Peck, P. Harrision, L. Green, A. Butler, C. Langford,
R. Gwilliam, E. Huckle, L. Baron, A. Smith, M. Leversha, Y. Ramsey,
S. Clegg, C. Rice, G. Maslen, S. Hunt, C. Scott, S. Soderlund, A.
Theaker, N. Carter, M. Ross, P. Deloukas, D. Bentley, I. Dunham
(1997) From Long Range Mapping to Sequence Ready Contigs on Human
Chromosome 6. DNA sequence - The Journal of Sequencing and Mapping,
8:151-154.
Soderlund,
C., I. Longden and R. Mott (1997) FPC: a system for building contigs
from restriction fingerprinted clones. CABIOS, 13: 523-535.
Download.
Gregory,
S., C. Soderlund and A. Coulson (1996) Contig assembly by fingerprinting.
In P. H. Dear (ed) Genome Mapping: a Practical Approach.
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