NAME

       mipe2dbSTS.pl - Generates input file for submission to dbSTS
         included in output: STS section of dbSTS submission
         based on MIPE version v1.1
         arguments: * mipe_file
                    * config file
                    * (optional) list of PCR IDs

         The config file consists of lines containing a key and a value, separated by an equal sign ('=').
         The key consists of the lowercase name of the NCBI submission file (see website dbSTS), followed by
         an underscore and the lowercase name of the field in that file.
         The following fields should be defined in the config file:
            pub_title=
            pub_authors=
            source_name=
            source_organism=
            cont_name=
            cont_fax=
            cont_tel=
            cont_email=
            cont_lab=
            cont_inst=
            cont_addr=
            protocol_name=
            protocol_protocol=
            buffer_name=
            buffer_buffer=
            sts_pcr_profile=
          For protocol_protocol, buffer_buffer and sts_pcr_profile, more lines are necessary (see example).

          An example of a config file look like this:
            pub_title=Genetic mapping of chicken SNPs
            pub_authors=Aerts,J.A.; Veenendaal,T.; Crooijmans,R.P.M.A; Groenen,M.A.M
            source_name=Chicken genomic DNA
            source_organism=Gallus gallus
            cont_name=Jan Aerts
            cont_fax=+31 317 483929
            cont_tel=+31 317 483397
            cont_email=jan.aerts@wur.nl
            cont_lab=Animal Breeding and Genomics Group
            cont_inst=Wageningen University
            cont_addr=PO Box 338, 6700 AH Wageningen, The Netherlands
            protocol_name=Protocol_Aerts
            protocol_protocol=Template:    30-60 ng
            protocol_protocol=Primer:     each 4 uM
            protocol_protocol=dNTPs:    each 200 uM
            protocol_protocol=Taq:        0.3 units
            protocol_protocol=Volume:         12 ul
            buffer_name=Buffer_Aerts
            buffer_buffer=MgCl2:         1.5 mM
            buffer_buffer=(NH4)2SO4:      20 mM
            buffer_buffer=Tris-HCl:       75 mM
            buffer_buffer=Tween 20: 0.01% (w/v)
            buffer_buffer=pH:               8.8

BUGS

       Unknown. If you encounter one, please let me know (jan.aerts@wur.nl).

SYNOPSIS

       mipe2dbSTS.pl your_file.mipe dbSTS.config <pcr_id1> <pcr_id2>

ADDITIONAL INFO

       See http://mipe.sourceforge.net

AUTHOR

       Jan Aerts (jan.aerts@bbsrc.ac.uk)