Hi Zhangpeng, Please see my replies to your questions below. If you have any further questions, feel free to contact us again at [email protected].
--- Luvina Guruvadoo UCSC Genome Bioinformatics Group Dear Editor I have some questions about the primary table : gnfAtlas2. (1) what 's the difference between chromstart/end and thickStart/end The table is presented in a BED format. Please see http://genome.ucsc.edu/FAQ/FAQformat.html#format1 for more information on BED; here you will find the definitions for chromStart/End and thickStart/End. However, for this track, all chromStart=thickStart and all chromEnd=thickEnd. So in this case, you can ignore the thickStart/End fields, as they are redundant with chrom Start/End. (2) what 's the meaning of "Start/End of where display should be thick" Please see answer to (1). (3) what role does column "name" play in the record and why a uniq "name" may exists in multi-records In the case of this table, "name" refers to the name of the probe used. The same probe can map to more than one genomic location. (4) If a segment of a cDNA locus in the region "chr8:95292-95410", that it expressScore in brain is -0.401. Am I right? Yes, you are correct; this expression score refers to experimental ID "0", which is fetal brain tissue. There are 79 expression scores, and each corresponds to an experimental ID (0-78). You can use the table browser to obtain a list of experimental IDs and their corresponding tissue type: goto the table browser, select "gnfAtlas2" as the table, select "microarray names" as the output format and click "get output". _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
