Transcriptional Characterization of Glioma Neural Stem Cells Diva ...

A.4 Tag-seq vs qRT-PCR Correlation Appendix
A.4 Tag-seq vs qRT-PCR Correlation
The correlation between the qRT-PCR measurements from the 21 cell lines
(16 GNS and 5 NS cell lines) and the Tag-seq measurements from the five cell
lines (three GNS and two NS cell lines) was found by taking the normalised
Ct values and tag counts for each of the 82 core differentially expressed genes
- as determined by Tag-seq on the three GNS cell lines and two NS cell lines -
and applying the cor function from the stats R package.
Table A.5: Pearson correlation values between the normalised Ct values measured
through qRT-PCR and the tag counts measured across the five GNS and NS cell
lines assayed via Tag-seq.
Gene name Pearson Gene name Pearson
correlation correlation
PTEN 0.9973 MAN1C1 0.9953
NDN 0.9942 HMGA2 0.9932
HOXD10 0.9925 TUSC3 0.9888
TES 0.9848 SYNM 0.9823
SIX3 0.9800 LYST 0.9797
MYL9 0.9777 PLA2G4A 0.9757
IRX2 0.9749 DDIT3 0.9748
MT2A 0.9741 MMP17 0.9735
BACE2 0.9684 MAF 0.9672
CA12 0.9653 LMO3 0.9652
NKX2-1 0.9625 IL17RD 0.9571
SEMA6A 0.9560 CXXC4 0.9520
FAM69A 0.9475 ADD2 0.9451
SPARCL1 0.9416 LMO2 0.9391
CHCHD10 0.9388 PLCH1 0.9362
PEG3 0.9345 CCND2 0.9344
KALRN 0.9310 FAM38B 0.9278
EDA2R 0.9270 GPR158 0.9222
LMO4 0.9203 CD9 0.9187
ODZ2 0.9168 ST6GALNAC5 0.9139
MAP6 0.9116 NPTX2 0.9047
CACNG8 0.9045 SLIT2 0.9016
MMRN1 0.8906 CD74 0.8906
TAGLN 0.8874 PDE1C 0.8832
CEBPB 0.8813 DNER 0.8811
FUT8 0.8804 C9orf125 0.8772
RAB6B 0.8709 PI15 0.8654
NTN1 0.8620 SULF2 0.8602
KCTD12 0.8384 PMEPA1 0.8322
LUM 0.8263 SALL2 0.8078
NNMT 0.8034 HLA-DRA 0.7884
RTN1 0.7777 MN1 0.7714
RGS5 0.7679 CTSC 0.7661
C5orf13 0.7595 PLS3 0.7439
NELL2 0.7146 NTRK2 0.7115
LPAR6 0.7090 EPDR1 0.7053
LAMA2 0.6889 SDC2 0.6595
S100A6 0.6580 FOXG1 0.6051
PDZRN3 0.6032 FBLN2 0.5795
PRSS12 0.5211 LGALS3 0.5204
DTX4 0.4964 FOXJ1 0.4454
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