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Publications

All upgrades since 7-Nov-2016 have been developed by Cari Soderlund without funding or an updated publication.

C. Soderlund, M. Bomhoff, and W. Nelson (2011) SyMAP v3.4: a turnkey synteny system with application to plant genomes Nucleic Acids Research 39(10):e68 Link

C. Soderlund, W. Nelson, A. Shoemaker and A. Paterson (2006) SyMAP: A system for discovering and viewing syntenic regions of FPC maps. Genome Research 16:1159-1168. Link

SyMAP uses MUMmer1,2 for computing the alignment between two genomes.

History of SyMAP

FPC (FingerPrinted Contig, Soderlund et al. (2000) Genome Research) was written to build physical maps from fingerprinted clones, but is obsolete now. SyMAP was originally written for FPC maps-to-sequence synteny (FPC User Guide), then was upgraded for sequence-to-sequence synteny. FPC was removed from SyMAP in v5.0.9, but v5.0.8 is still available from Github downloads; if it does not work with latest Java and MySQL, email me and I will update it for you.
 
Email Comments To: cas1@arizona.edu