PCR+Screen+for+7+chimeric+transcripts+in+41+pools+5-21-13

PCR Screen for 7 chimeric transcripts in 41 pools 5-21-13

experiment performed 5-21-13 (actually just planned this day) and 5-22-13

refer to this spreadsheet to see which chimeric transcripts were detected in pools 1-20 and 21-41 (so just 2 pools) "F:\kurt\storage\CIM Research Folder\DR\2013\5-7-13\chim transc\Chimeric transcript screen 5-2-13.xls" Here are some gels that are associated with some of the information in this spreadsheet. However, this information is not necessarily related to this experiment "F:\kurt\storage\CIM Research Folder\DR\2013\5-7-13\chim transc\chimeric transcript gels 5-2-13.svg" and here "F:\kurt\storage\CIM Research Folder\DR\2013\5-7-13\chim transc\chimeric transcript gels 2 5-2-13.svg"

182+2*7=196
 * Chimeric transcript || Expected size || Potential positive pools || Number of pools ||
 * 10339 || 315 || "1-20" || 20 ||
 * 10176 || 506 || "1-20" || 20 ||
 * 20131 || 246 || "1-41" || 41 ||
 * 20151 || 362 || "1-20" || 20 ||
 * 10142 || 499 || "21-41" || 20 ||
 * 20026 || 229 || "21-41" || 20 ||
 * 10028 || 400 || "1-41" || 41 ||
 * ||  || total || 182 ||

the 2*7 is for a positive and negative control for each transcript

I should use a water template as a negative control. I should also use some 4T1 cDNA as a negative control, but I think I will need to make some more of this. Actually I found some cDNA 4T1 Balb s c tumor cDNA purified 11-27-12

I will dilute this cDNA by 100 so that it can last longer.

For the size range of these fragments I should make a 1.5% gel. I should make 2 350 mL gels each with 4 24 tooth combs (192 teeth total), and 1 1.5% 100 mL gel

Shared drive gel images S:\Research\Cancer_Eradication\Discovering tumor specific antigens\Tumor cDNA Library\5-23-13

Data for chimeric transcripts found here a table with which pools contained the chimeric transcript and what the expected size is (similar to table above) ( This spreadsheet just contains information about which tubes correspond to which pools that need to be screened with which chimeric transcript) "F:\kurt\storage\CIM Research Folder\DR\2013\5-24-13\chimeric transcripts\Data for chimeric transcripts 5-24-13.xlsx"

Diagrams of the gels can be found here "F:\kurt\storage\CIM Research Folder\DR\2013\5-24-13\chimeric transcripts\chimeric transcript gels 5-24-13.svg"

Table of results found here (this spreadsheet has a list of pcrs that I need to retest) "F:\kurt\storage\CIM Research Folder\DR\2013\5-24-13\chimeric transcripts\table of results 5-24-13.xlsx"