1. Updated the map of data set with Build37 Cox genetic map, the new file was saved as "Clemens2000_BalbxB6_B37_Data.csv". The file is ready to be read into Rqtl;


2. Generated a description file of the project, it includes the general information, definitions of phenotypes, description of genotypes and information of missing markers;


3. For the genotypes of the cross (cM=centiMorgan, bp=basepair)
(1) Change homozygous BALB/c alleles from "O" to "B", heterozygous alleles from "E" to "H" in B37 data file; 

(2) 6 markers didn't have bp positions in Cox map, assigned their bp positions from current MGI database (this type of markers were highlighted by yellow color in description file);

(3) 4 markers missed bp positions in both Cox map and MGI. Its Primer sequences were found in MGI, but their locations didn't match the result from primer-BLAST in NCBI. We could not identify the B37 bp positions of these markers currently and they were marked with pink color in description file;

(4) Marker "D14Mit260" missed bp position in both Cox map and MGI. No primer sequences were available from MGI so we could not identify the B37 bp position for this marker currently. It was also marked with blue color in description file;

(5) Marker "D7Mit362" missed bp positions in both Cox genetic map and MGI, its primer sequences were found in MGI, and their bp locations were identified using primer-BLAST in NCBI followed by UCSC In-Silico PCR (this marker was highlighted with green color in description file)

(6) This cross didn't have X chromosome and any missing genotypes; 

For the details, please see the annotation of these markers in description file.


4. For the phenotypes of the cross:
There were 6 phenotypes in cross file and no problems were detected.


5. Except the "csv" file mentioned above, saved the description file with original data, data with B37 map, data process record, missing marker list together as a big excel file ("Data_Description_BALBxB6_Clemens2000.xlsx"). (first curating work finished on 6/4/2008, files were updated in 8/10/2010, 10/6, 10/12, 10/26/2010).


6. Information updated on 10/11/2011: 
(1) Change the name of the map (from "Shifman" to "Cox" map) in description and readme file, add a map reference in description file; 

(2) Change the symbol of female mouse from "F" to "0", male mouse from "M" to "1" and save the changes in B37 data file; 

(3) Quality control plots (genetic map, missing genotypes plot, map comparision plot and whole genome RF plot) performed and no issues found. All quality control plots were saved in QCReport_Clemens2000.pdfÓ.