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 Rv0853c/pdc:

update plot	correlation	link to info on gene
Rv1074c/fadA3	(cc=0.5105)	info on Rv1074c/fadA3
Rv0923c/-	(cc=0.4748)	info on Rv0923c/-
Rv1168c/PPE17	(cc=0.4311)	info on Rv1168c/PPE17
Rv3079c/-	(cc=0.4291)	info on Rv3079c/-
Rv3238c/-	(cc=0.4244)	info on Rv3238c/-
Rv1739c/-	(cc=0.3809)	info on Rv1739c/-
Rv2453c/mobA	(cc=0.3794)	info on Rv2453c/mobA
Rv2951c/-	(cc=0.3771)	info on Rv2951c/-
Rv0098/fcoT	(cc=0.3648)	info on Rv0098/fcoT
Rv3120/-	(cc=0.3587)	info on Rv3120/-

Correlation of Rv0853c/pdc with Rv1168c/PPE17

Normalized LFCs for Rv0853c/pdc:
(description and provenance of datasets)

	Rv0853c/pdc	Rv1168c/PPE17
Fe_supp_jason_reseq	-0.346	0.699
low_pH_jason_reseq	-0.278	0.607
NO_jason_reseq	-1.189	-0.074
B6_jason_reseq	0.341	-0.071
MHCII_jason_reseq	0.358	0.25
Isoniazid02	0.137	0.594
Rifampicin4	0.255	0.016
Ethambutol3	0.663	0.82
Meropenem3	0.089	0.283
Vancomycin16	0.141	0.26
Rv2680_day32	-0.592	0.157
H37Rv_KO_MarP	-0.135	-0.183
hypoxia_3wks	-0.407	0.419
hypoxia_6wks	0.238	-0.188
glycerol	-0.35	-0.238
cholesterol	-0.408	-0.308
AJ	-0.632	-0.274
Bibs02	-0.196	0.323
Bibs02c	-0.797	-0.229
BL6	-0.283	0.323
BL6a	-0.088	-0.159
BXD01	0.064	0.074
BXD010	0.35	0.339
BXD011	0.197	-0.185
BXD03	-0.04	-0.36
BXD04	0.222	-0.151
BXD05	0.33	0.207
BXD06	0.304	0.061
BXD07	0.161	0.032
BXD08	0.039	0.145
BXD09	-0.196	-0.178
CAST	-0.878	-0.137
CCcont	-0.032	-0.083
DS01	0.366	-0.289
DS02	0.581	0.058
DS04	0.594	0.829
DS0c	-0.08	-0.878
GP01	-1.223	0.011
GP02	-0.166	0.887
GP0c	-0.442	-0.386
NOD	1.1	0.971
NZO	-0.328	-0.818
PWK	-0.117	0.328
H37Rv_KO_CtpC	-0.035	0.37
H37Rv_KO_CtpD	0.421	0.183
H37Rv_KO_Rv1272	0.164	0.231
H37Rv_KO_SugABC	0.225	0.316
H37Rv_KO_MbtN	0.386	0.398
Trans05	0.863	0.84
macrophage_unactivated	0.903	1.133
IL1	0.543	-0.157
Rapamycin	0.384	0.138
Tcell	-0.029	0.254
GMCSF	0.261	0.319
IFNab	0.245	0.381
IFNg	0.147	0.436
IFNg_GMCSF1	1.178	0.264
Rv1432_day32	0.287	0.15
Rv1565c_day32	0.077	-0.046
secA2_input	-0.363	0.081
delta_Rv3594	0.54	0.0
delta_Rv3717	-0.083	-0.157
delta_Rv3811	0.4	0.071
delta_Rv0954	0.017	-0.243
PonA1	-0.015	-0.032
EccD1_KO	0.204	0.391
EspI_KO	1.084	0.747
PE35_KO	0.268	0.688
PPE68_KO	0.72	0.31
glycerol2	0.31	0.73
lignocerate	0.723	0.537
oleate	0.169	0.654
phosphatidylcholine	0.132	0.704
acetate	-0.598	-0.446
glucAc	-0.154	-0.61
Rv0950ko	-0.567	-0.112
Rv1096ko	0.419	-0.685
Rv3684ko	0.147	0.255
delta_otsA_trehalose	-0.022	0.813