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 Rv0628c/-:

update plot	correlation	link to info on gene
Rv3439c/-	(cc=0.4635)	info on Rv3439c/-
Rv1075c/-	(cc=0.4544)	info on Rv1075c/-
Rv2768c/PPE43	(cc=0.4372)	info on Rv2768c/PPE43
Rv0791c/-	(cc=0.4334)	info on Rv0791c/-
Rv3371/-	(cc=0.4293)	info on Rv3371/-
Rv2034/-	(cc=0.4255)	info on Rv2034/-
Rv2831/echA16	(cc=0.4153)	info on Rv2831/echA16
Rv2013/-	(cc=0.4142)	info on Rv2013/-
Rv2420c/-	(cc=0.4128)	info on Rv2420c/-
Rv2002/fabG3	(cc=0.4088)	info on Rv2002/fabG3

Correlation of Rv0628c/- with Rv2768c/PPE43

Normalized LFCs for Rv0628c/-:
(description and provenance of datasets)

	Rv0628c/-	Rv2768c/PPE43
Fe_supp_jason_reseq	-1.418	-1.089
low_pH_jason_reseq	-1.128	0.49
NO_jason_reseq	0.845	-0.018
B6_jason_reseq	-0.181	0.289
MHCII_jason_reseq	-0.579	0.712
Isoniazid02	0.503	0.288
Rifampicin4	0.474	0.214
Ethambutol3	0.045	0.848
Meropenem3	0.483	-0.207
Vancomycin16	0.098	0.191
Rv2680_day32	1.237	1.162
H37Rv_KO_MarP	0.319	0.083
hypoxia_3wks	0.159	-0.144
hypoxia_6wks	0.01	-0.136
glycerol	-0.462	-0.658
cholesterol	1.184	-0.184
AJ	0.076	0.316
Bibs02	0.38	0.279
Bibs02c	-0.07	0.579
BL6	0.07	-0.676
BL6a	-0.344	-0.044
BXD01	-0.431	-0.192
BXD010	-1.06	-0.871
BXD011	-0.415	-0.389
BXD03	-0.904	-0.278
BXD04	-0.095	-0.042
BXD05	0.312	-0.53
BXD06	-0.151	-0.349
BXD07	0.365	-0.389
BXD08	0.179	-0.355
BXD09	-0.642	-0.698
CAST	0.479	0.199
CCcont	0.113	-0.427
DS01	0.741	0.773
DS02	0.849	0.158
DS04	1.952	0.908
DS0c	0.105	0.577
GP01	-0.458	-0.022
GP02	-1.061	-0.789
GP0c	-0.233	-1.012
NOD	-0.633	-0.342
NZO	-0.874	0.233
PWK	0.016	0.229
H37Rv_KO_CtpC	-0.753	-0.64
H37Rv_KO_CtpD	-0.637	0.009
H37Rv_KO_Rv1272	-0.219	-0.167
H37Rv_KO_SugABC	-1.277	0.189
H37Rv_KO_MbtN	-0.546	0.212
Trans05	-0.532	-0.473
macrophage_unactivated	0.859	0.306
IL1	1.092	-0.101
Rapamycin	1.08	-0.574
Tcell	0.388	0.316
GMCSF	1.354	0.045
IFNab	0.39	-0.051
IFNg	-0.214	-0.788
IFNg_GMCSF1	-0.116	-0.214
Rv1432_day32	0.587	0.656
Rv1565c_day32	1.205	0.954
secA2_input	1.223	0.318
delta_Rv3594	0.828	0.74
delta_Rv3717	0.54	0.259
delta_Rv3811	2.085	0.015
delta_Rv0954	1.246	0.355
PonA1	1.503	0.575
EccD1_KO	0.089	0.263
EspI_KO	0.02	-0.094
PE35_KO	-1.485	0.166
PPE68_KO	-0.531	-0.413
glycerol2	0.0	0.64
lignocerate	0.429	1.174
oleate	-0.121	0.444
phosphatidylcholine	0.594	0.905
acetate	-0.171	0.359
glucAc	-0.243	0.602
Rv0950ko	0.069	0.109
Rv1096ko	-0.069	-0.112
Rv3684ko	-0.671	-0.534
delta_otsA_trehalose	-0.925	-0.447