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 Rv2077c/-:

update plot	correlation	link to info on gene
Rv1781c/malQ	(cc=0.588)	info on Rv1781c/malQ
Rv3738c/PPE66	(cc=0.537)	info on Rv3738c/PPE66
Rv3688c/-	(cc=0.5317)	info on Rv3688c/-
Rv1103c/mazE3	(cc=0.5285)	info on Rv1103c/mazE3
Rv2390c/-	(cc=0.526)	info on Rv2390c/-
Rv0194/-	(cc=0.5153)	info on Rv0194/-
Rv1045/-	(cc=0.4897)	info on Rv1045/-
Rv2602/vapC41	(cc=0.4682)	info on Rv2602/vapC41
Rv1263/amiB2	(cc=0.4636)	info on Rv1263/amiB2
Rv0572c/-	(cc=0.4501)	info on Rv0572c/-

Correlation of Rv2077c/- with Rv3738c/PPE66

Normalized LFCs for Rv2077c/-:
(description and provenance of datasets)

	Rv2077c/-	Rv3738c/PPE66
Fe_supp_jason_reseq	-0.658	-0.238
low_pH_jason_reseq	-0.442	-0.192
NO_jason_reseq	0.249	-0.034
B6_jason_reseq	0.26	-0.216
MHCII_jason_reseq	-0.431	0.063
Isoniazid02	-0.18	-0.949
Rifampicin4	0.043	-0.014
Ethambutol3	-0.505	-0.585
Meropenem3	-0.181	-0.751
Vancomycin16	-0.143	-0.825
Rv2680_day32	0.272	0.525
H37Rv_KO_MarP	0.113	0.365
hypoxia_3wks	0.355	-0.363
hypoxia_6wks	0.198	-0.716
glycerol	-0.357	-0.75
cholesterol	-0.385	-0.871
AJ	0.161	-0.491
Bibs02	0.465	0.042
Bibs02c	-0.064	1.031
BL6	0.336	0.475
BL6a	0.116	0.947
BXD01	-0.309	0.456
BXD010	-0.019	0.395
BXD011	-0.142	0.668
BXD03	-0.295	0.155
BXD04	-0.317	0.142
BXD05	-0.128	0.452
BXD06	-0.031	0.191
BXD07	-0.215	0.205
BXD08	0.13	0.124
BXD09	0.032	0.225
CAST	-0.367	-0.087
CCcont	-0.148	0.094
DS01	-0.195	-0.044
DS02	-0.243	0.03
DS04	0.195	0.215
DS0c	-0.556	0.148
GP01	0.514	0.298
GP02	0.626	1.222
GP0c	0.205	0.739
NOD	-0.096	0.182
NZO	-0.101	-0.624
PWK	0.409	0.134
H37Rv_KO_CtpC	0.304	0.718
H37Rv_KO_CtpD	0.53	1.243
H37Rv_KO_Rv1272	0.412	0.297
H37Rv_KO_SugABC	0.799	0.756
H37Rv_KO_MbtN	0.307	0.763
Trans05	0.764	0.529
macrophage_unactivated	-0.06	0.496
IL1	0.294	0.605
Rapamycin	-0.325	0.178
Tcell	-0.463	0.316
GMCSF	-0.227	0.356
IFNab	0.042	0.018
IFNg	0.345	-0.128
IFNg_GMCSF1	-0.544	-0.057
Rv1432_day32	0.143	0.297
Rv1565c_day32	0.103	-0.046
secA2_input	0.158	0.46
delta_Rv3594	-0.323	-0.488
delta_Rv3717	-0.339	-0.881
delta_Rv3811	-0.03	-0.892
delta_Rv0954	0.388	-0.198
PonA1	0.055	-0.443
EccD1_KO	-0.464	-0.234
EspI_KO	-0.268	-0.359
PE35_KO	-1.024	-0.327
PPE68_KO	-0.819	-0.154
glycerol2	0.928	0.824
lignocerate	0.906	0.927
oleate	0.808	0.953
phosphatidylcholine	1.206	0.975
acetate	0.527	0.076
glucAc	0.385	0.269
Rv0950ko	0.525	0.458
Rv1096ko	0.036	-0.377
Rv3684ko	0.393	-0.269
delta_otsA_trehalose	0.628	1.259