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 Rv2602/vapC41:

update plot	correlation	link to info on gene
Rv3323c/moaX	(cc=0.5054)	info on Rv3323c/moaX
Rv1489A/-	(cc=0.4764)	info on Rv1489A/-
Rv2077c/-	(cc=0.4682)	info on Rv2077c/-
Rv0342/iniA	(cc=0.4672)	info on Rv0342/iniA
Rv2208/cobS	(cc=0.4656)	info on Rv2208/cobS
Rv0843/-	(cc=0.4639)	info on Rv0843/-
Rv2954c/-	(cc=0.4588)	info on Rv2954c/-
Rv3435c/-	(cc=0.4436)	info on Rv3435c/-
Rv0160c/PE4	(cc=0.4397)	info on Rv0160c/PE4
Rv0872c/PE_PGRS15	(cc=0.438)	info on Rv0872c/PE_PGRS15

Correlation of Rv2602/vapC41 with Rv0160c/PE4

Normalized LFCs for Rv2602/vapC41:
(description and provenance of datasets)

	Rv2602/vapC41	Rv0160c/PE4
Fe_supp_jason_reseq	0.177	0.011
low_pH_jason_reseq	-1.456	-0.07
NO_jason_reseq	-0.507	-0.11
B6_jason_reseq	-0.245	0.416
MHCII_jason_reseq	0.183	0.302
Isoniazid02	-1.794	-1.8
Rifampicin4	0.403	0.208
Ethambutol3	-1.769	-0.931
Meropenem3	-1.022	-1.482
Vancomycin16	-0.836	-0.836
Rv2680_day32	0.05	-0.088
H37Rv_KO_MarP	0.052	0.748
hypoxia_3wks	-0.227	-0.191
hypoxia_6wks	-0.299	-0.175
glycerol	-1.008	0.471
cholesterol	0.234	0.477
AJ	0.837	0.062
Bibs02	-0.543	0.886
Bibs02c	0.191	0.584
BL6	0.597	0.188
BL6a	-0.096	0.375
BXD01	0.043	-0.029
BXD010	-0.593	-0.023
BXD011	0.0	0.241
BXD03	-0.346	0.15
BXD04	0.19	0.354
BXD05	-0.379	0.048
BXD06	0.042	0.316
BXD07	-0.134	0.182
BXD08	0.194	0.338
BXD09	-0.072	0.032
CAST	-0.656	0.427
CCcont	-0.048	-0.148
DS01	-0.452	0.281
DS02	-0.44	0.584
DS04	0.649	0.126
DS0c	-0.195	-0.141
GP01	-0.556	0.358
GP02	-0.242	1.382
GP0c	-0.075	-0.229
NOD	0.2	0.364
NZO	-0.15	0.887
PWK	0.279	0.193
H37Rv_KO_CtpC	-0.497	0.447
H37Rv_KO_CtpD	-0.614	1.091
H37Rv_KO_Rv1272	0.157	1.015
H37Rv_KO_SugABC	0.765	0.612
H37Rv_KO_MbtN	-0.561	0.485
Trans05	1.492	0.807
macrophage_unactivated	-0.606	-0.354
IL1	-0.644	0.098
Rapamycin	0.028	0.239
Tcell	-0.639	-0.248
GMCSF	-0.65	-0.09
IFNab	-0.221	0.039
IFNg	-0.738	0.294
IFNg_GMCSF1	0.069	0.085
Rv1432_day32	0.145	0.339
Rv1565c_day32	0.559	0.458
secA2_input	-0.565	-0.333
delta_Rv3594	0.257	-0.099
delta_Rv3717	0.254	-0.239
delta_Rv3811	-0.12	-0.223
delta_Rv0954	0.411	0.358
PonA1	1.002	0.126
EccD1_KO	-0.727	-0.444
EspI_KO	-0.231	0.074
PE35_KO	-1.123	-0.446
PPE68_KO	-1.385	-0.221
glycerol2	0.682	0.276
lignocerate	0.867	0.284
oleate	1.969	0.216
phosphatidylcholine	0.885	0.387
acetate	0.248	0.083
glucAc	0.352	0.264
Rv0950ko	-0.781	0.479
Rv1096ko	-0.54	-0.13
Rv3684ko	-0.337	0.134
delta_otsA_trehalose	-0.886	0.026