figure+for+selection+of+lysate+from+3e6+clones

As of 3-10-13 this will be figure 3a

This figure will make use of data from the 2-29-12 experiment.

2-29-12 (1st experiment) SMC1fs, 4T1 tumor, naïve sera and secondary were applied to array. Sera at 1:500 dilution. Secondary at 5 nM. Conditions: overnight, 23 C, Super G blocking buffer. Obtained some candidate spots for further screening. (see http://azim58.wikispaces.com/1st+experiment+2-23-12) ---2 slides Mouse anti-SMC1fs antibody 2 slides tumor mouse 2 slides naive mouse



I'll have to make several graphs and use several programs to get the final figure that I want. -These graphpad prism files will use the same axis --axis --- scale of x-axis is from -2.5 to 1.0 with a 0.5 interval

---scale of y-axis is from 0 to 4 with a 1.0 interval --files ---A graphpad prism file with all of the points can be found here "C:\kurt\storage\CIM Research Folder\DR\2013\3-9-13\work on paper\figure for selecting lysate from 3e6 clone\selecting_from_3e6_all_points.pzf" ---3-28-13 I later made another graph with all of the points with the 5 most significant p-value high tumor and 5 most significant p-value high naive points excluded "C:\kurt\storage\CIM Research Folder\DR\2013\3-9-13\work on paper\figure for selecting lysate from 3e6 clone\selecting_from_3e6_all_points2.pzf" --- Another graphpad prism file with the least significant lysates found here "C:\kurt\storage\CIM Research Folder\DR\2013\3-9-13\work on paper\figure for selecting lysate from 3e6 clone\lysates_with_least_significant_p-value.pzf" --- Another file "C:\kurt\storage\CIM Research Folder\DR\2013\3-9-13\work on paper\figure for selecting lysate from 3e6 clone\lysates_with_most_significant_p-value_and_high_tumor_intensity.pzf" --- Another file "C:\kurt\storage\CIM Research Folder\DR\2013\3-9-13\work on paper\figure for selecting lysate from 3e6 clone\lysates_with_most_significant_p-value_and_high_naive intensity.pzf" ---16E3 lysate "C:\kurt\storage\CIM Research Folder\DR\2013\3-9-13\work on paper\figure for selecting lysate from 3e6 clone\16E3 lysate.pzf"

Now I need to combine the images from these different files to make a composite graph. I'll do this using Gimp. Composite gimp file "C:\kurt\storage\CIM Research Folder\DR\2013\3-9-13\work on paper\figure for selecting lysate from 3e6 clone\selecting lysate from 3e6 clone composite.xcf"

New composite gimp file without the dots inside the 10 symbols and the least significant p-value layer removed "C:\kurt\storage\CIM Research Folder\DR\2013\3-9-13\work on paper\figure for selecting lysate from 3e6 clone\selecting lysate from 3e6 clone composite2.xcf"

Inkscape files (oldest to newest) Inkscape file with labels "C:\kurt\storage\CIM Research Folder\DR\2013\3-9-13\work on paper\figure for selecting lysate from 3e6 clone\figure for selecting lysate from 3e6 clone.svg" New Inkscape file with labels "C:\kurt\storage\CIM Research Folder\DR\2013\3-9-13\work on paper\figure for selecting lysate from 3e6 clone\figure for selecting lysate from 3e6 clone 2.svg" "F:\kurt\storage\CIM Research Folder\DR\2013\3-9-13\work on paper\figure for selecting lysate from 3e6 clone\figure for selecting lysate from 3e6 clone 3.svg"

log2 fold change image "C:\kurt\storage\CIM Research Folder\DR\2013\3-9-13\work on paper\figure for selecting lysate from 3e6 clone\log2 fold change image.png"

-log10 p-value image "C:\kurt\storage\CIM Research Folder\DR\2013\3-9-13\work on paper\figure for selecting lysate from 3e6 clone\-log10 p-value.png"

Pdf of "Figure 3a" "C:\kurt\storage\CIM Research Folder\DR\2013\3-9-13\work on paper\figure for selecting lysate from 3e6 clone\Figure 3a.pdf"

Screen of Tumor 3e6 library powerpoint slide "C:\kurt\storage\CIM Research Folder\DR\2013\4-1-13\presentation prep\Screen of Tumor 3e6 library.pptx"