Talk:Jenna Reed

2/8/18

Bio343 HTSeq Results

Male Mutant 25 and 24 = paired reads, Male mouse 2078, C201R 15 and 14 = paired reads, Male mouse 2073, C201R 3 and 2 = paired reads, Male mouse 2079, C201R

Male WT 21 and 20 = paired reads, Male mouse 2076, WT 19 and 18 = paired reads, Male mouse 2075, WT 17 and 16 = paired reads, Male mouse 2074, WT

Female Mutant 13 and 12 = paired reads, Female mouse 2072, C201R 11 and 10 = paired reads, Female mouse 2071, C201R 9 and 8 = paired reads, Female mouse 2070, C201R

Female WT 23 and 22 = paired reads, Female mouse 2077, WT 7 and 6 = paired reads, Female mouse 2081, WT 5 and 4 = paired reads, Female mouse 2080, WT

Gene Cards Gene Weaver GO rilla FNTM String NCBI

2/8/18 " Loaded data from "Histories Shared with Me"

NefL >>> deltaCMT 1F 2E NefH >>> deltaALS Sphk2 >>> kinase Male v Female MaleWT v MaleCMT FemaleWT v FemaleCMT Gm4210 NefM (neurofilament medium) Close with NefL, and Gm2410 Calca >>> calcium regulator

About this data " Took the spinal cord of the mice and sent it off for RNASeq " 2-fold change o -0.7 = 1.62 fold change o -0.8 = 1.74 fold change o -7.56 = 128fold change, p=10^-14 o What's our fold-change cutoff? " JAX had a strict cutoff and got only 20 genes " Lack of signal because of CMT could cause repression of transcription (because usually ligand binding induces transcription) " RNASeq data will always have differential expression from natural variation o Is it enough differential expression that it could be caused by the disease?