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 Rv3282/-:

update plot	correlation	link to info on gene
Rv0264c/-	(cc=0.5307)	info on Rv0264c/-
Rv3641c/fic	(cc=0.478)	info on Rv3641c/fic
Rv3697c/vapC48	(cc=0.4757)	info on Rv3697c/vapC48
Rv2647/-	(cc=0.4695)	info on Rv2647/-
Rv3018c/PPE46	(cc=0.4684)	info on Rv3018c/PPE46
Rv3512/PE_PGRS56	(cc=0.4601)	info on Rv3512/PE_PGRS56
Rv3681c/whiB4	(cc=0.46)	info on Rv3681c/whiB4
Rv2808/-	(cc=0.4514)	info on Rv2808/-
Rv3353c/-	(cc=0.4422)	info on Rv3353c/-
Rv0278c/PE_PGRS3	(cc=0.4339)	info on Rv0278c/PE_PGRS3

Correlation of Rv3282/- with Rv3018c/PPE46

Normalized LFCs for Rv3282/-:
(description and provenance of datasets)

	Rv3282/-	Rv3018c/PPE46
Fe_supp_jason_reseq	0.633	0.379
low_pH_jason_reseq	-0.793	-0.125
NO_jason_reseq	-0.155	0.391
B6_jason_reseq	1.044	0.618
MHCII_jason_reseq	1.491	0.516
Isoniazid02	-0.383	0.911
Rifampicin4	0.108	0.921
Ethambutol3	-0.207	1.828
Meropenem3	-0.315	0.552
Vancomycin16	0.207	0.446
Rv2680_day32	0.131	0.505
H37Rv_KO_MarP	-0.199	0.274
hypoxia_3wks	-0.439	-0.471
hypoxia_6wks	-1.044	-0.173
glycerol	0.69	0.181
cholesterol	1.121	0.214
AJ	1.758	0.706
Bibs02	-0.935	0.576
Bibs02c	1.332	0.117
BL6	0.266	0.246
BL6a	0.191	0.304
BXD01	0.853	0.339
BXD010	0.374	0.369
BXD011	-0.34	0.524
BXD03	0.088	0.274
BXD04	0.157	-0.046
BXD05	0.585	0.611
BXD06	0.0	0.556
BXD07	0.09	0.281
BXD08	0.246	0.433
BXD09	0.135	0.208
CAST	0.292	0.676
CCcont	0.923	0.173
DS01	1.181	0.318
DS02	-0.314	0.016
DS04	1.088	0.287
DS0c	-0.231	0.107
GP01	-0.62	0.435
GP02	-0.825	0.288
GP0c	-0.044	-0.339
NOD	1.168	1.173
NZO	-0.367	0.331
PWK	1.319	0.628
H37Rv_KO_CtpC	0.706	0.613
H37Rv_KO_CtpD	-0.284	0.758
H37Rv_KO_Rv1272	-0.646	0.949
H37Rv_KO_SugABC	-0.622	0.64
H37Rv_KO_MbtN	-0.782	0.582
Trans05	0.758	0.563
macrophage_unactivated	0.552	-0.117
IL1	-1.468	-0.807
Rapamycin	-1.519	-0.571
Tcell	-1.01	-1.062
GMCSF	-0.671	-0.536
IFNab	0.139	-1.24
IFNg	-1.502	-1.018
IFNg_GMCSF1	0.283	-0.613
Rv1432_day32	-0.827	0.229
Rv1565c_day32	-0.218	0.55
secA2_input	0.515	-0.706
delta_Rv3594	0.0	-0.128
delta_Rv3717	-1.212	-0.837
delta_Rv3811	0.532	-0.333
delta_Rv0954	-0.83	-0.335
PonA1	-0.741	-0.404
EccD1_KO	-0.687	-0.22
EspI_KO	-1.184	0.163
PE35_KO	-1.321	-0.02
PPE68_KO	-0.467	0.138
glycerol2	1.473	0.807
lignocerate	1.593	1.119
oleate	0.763	0.055
phosphatidylcholine	1.494	0.961
acetate	1.327	0.987
glucAc	1.186	0.667
Rv0950ko	0.371	0.021
Rv1096ko	0.19	-0.232
Rv3684ko	-0.675	-0.567
delta_otsA_trehalose	-1.241	-0.458