TnSeqCorr

• These are correlations of TnSeq responses across 82 experimental conditions.
• LFCs (log2-fold-changes) were computed for each gene in each condition relative to a relevant control condition (e.g. H37Rv grown on 7H9).
• The LFCs were normalized by dividing by the standard deviation for each condition. (so roughly, |LFC|>2 are the outliers, i.e. tails of the distribution)
• Note that essential genes often have LFCs around 0.
• Data for some genes is not available if they have less than 3 TA sites, or the dynamic range of LFCs is less than 2.0 across all conditions. (This is the case for many essential genes.)
• 'leverage' on each plot is a statistical score that indicates how much the regression is influenced by a few outlier points; the traditional threshold is indicated on the plots (3p/n, which is about 0.07 for this dataset), but in practice, cases with leverage > ~0.2 seem to be the least reliable (most misleading) correlation coefficients.

Top 10 genes with highest correlation to Rv0618/galTa:

update plot	correlation	link to info on gene
Rv0149/-	(cc=0.4613)	info on Rv0149/-
Rv2129c/-	(cc=0.4593)	info on Rv2129c/-
Rv0492c/-	(cc=0.4553)	info on Rv0492c/-
Rv2734/-	(cc=0.4515)	info on Rv2734/-
Rv2389c/rpfD	(cc=0.4491)	info on Rv2389c/rpfD
Rv0036c/-	(cc=0.425)	info on Rv0036c/-
Rv1949c/-	(cc=0.4192)	info on Rv1949c/-
Rv3705c/-	(cc=0.4104)	info on Rv3705c/-
Rv0408/pta	(cc=0.405)	info on Rv0408/pta
Rv0085/hycP	(cc=0.4043)	info on Rv0085/hycP

Correlation of Rv0618/galTa with Rv0492c/-

Normalized LFCs for Rv0618/galTa:
(description and provenance of datasets)

	Rv0618/galTa	Rv0492c/-
Fe_supp_jason_reseq	1.384	0.414
low_pH_jason_reseq	-0.788	-1.029
NO_jason_reseq	1.121	-0.465
B6_jason_reseq	-1.428	-0.441
MHCII_jason_reseq	0.111	0.039
Isoniazid02	0.202	1.356
Rifampicin4	0.596	1.088
Ethambutol3	0.914	0.465
Meropenem3	2.086	0.997
Vancomycin16	0.785	0.846
Rv2680_day32	0.0	0.691
H37Rv_KO_MarP	1.023	0.349
hypoxia_3wks	-0.658	-0.096
hypoxia_6wks	-0.532	-0.777
glycerol	1.442	0.929
cholesterol	-0.03	0.496
AJ	-1.368	0.299
Bibs02	-0.513	0.156
Bibs02c	0.427	0.014
BL6	-0.53	0.707
BL6a	-0.169	0.362
BXD01	1.083	0.304
BXD010	-0.054	0.118
BXD011	0.238	0.0
BXD03	-0.241	-0.189
BXD04	1.268	0.0
BXD05	-0.341	-0.562
BXD06	0.203	-0.187
BXD07	0.082	0.39
BXD08	-0.446	0.106
BXD09	0.526	-0.01
CAST	-0.302	0.284
CCcont	-0.936	0.373
DS01	0.186	0.833
DS02	-0.336	0.52
DS04	-1.29	0.117
DS0c	-0.284	-0.016
GP01	2.161	1.039
GP02	0.156	0.781
GP0c	1.475	0.521
NOD	-1.674	0.33
NZO	-0.308	0.053
PWK	-2.136	0.335
H37Rv_KO_CtpC	-0.068	0.588
H37Rv_KO_CtpD	0.781	0.855
H37Rv_KO_Rv1272	0.445	0.233
H37Rv_KO_SugABC	0.851	1.094
H37Rv_KO_MbtN	1.755	0.947
Trans05	1.168	0.641
macrophage_unactivated	-0.079	-0.066
IL1	1.376	0.181
Rapamycin	0.365	-0.043
Tcell	0.081	-0.023
GMCSF	1.41	0.61
IFNab	-0.233	0.206
IFNg	0.78	0.075
IFNg_GMCSF1	0.446	0.129
Rv1432_day32	1.356	0.913
Rv1565c_day32	0.0	0.046
secA2_input	-0.487	0.327
delta_Rv3594	-0.555	0.083
delta_Rv3717	0.419	-0.253
delta_Rv3811	0.077	0.091
delta_Rv0954	0.823	0.43
PonA1	-0.871	0.384
EccD1_KO	0.227	0.263
EspI_KO	-0.068	-0.279
PE35_KO	-0.592	-0.286
PPE68_KO	-0.563	-0.019
glycerol2	-1.24	0.102
lignocerate	-0.826	-0.214
oleate	0.021	0.58
phosphatidylcholine	0.083	0.092
acetate	-1.872	-0.625
glucAc	-2.672	-0.348
Rv0950ko	-0.582	0.549
Rv1096ko	-0.763	0.621
Rv3684ko	2.24	0.576
delta_otsA_trehalose	0.623	-0.229