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 Rv1168c/PPE17:

update plot	correlation	link to info on gene
Rv1319c/-	(cc=0.4724)	info on Rv1319c/-
Rv3121/cyp141	(cc=0.4563)	info on Rv3121/cyp141
Rv1074c/fadA3	(cc=0.4559)	info on Rv1074c/fadA3
Rv3079c/-	(cc=0.4475)	info on Rv3079c/-
Rv2360c/-	(cc=0.4321)	info on Rv2360c/-
Rv0853c/pdc	(cc=0.4311)	info on Rv0853c/pdc
Rv1871c/-	(cc=0.4264)	info on Rv1871c/-
Rv1966/mce3A	(cc=0.4223)	info on Rv1966/mce3A
Rv2958c/-	(cc=0.4173)	info on Rv2958c/-
Rv3614c/espD	(cc=0.4155)	info on Rv3614c/espD

Correlation of Rv1168c/PPE17 with Rv2958c/-

Normalized LFCs for Rv1168c/PPE17:
(description and provenance of datasets)

	Rv1168c/PPE17	Rv2958c/-
Fe_supp_jason_reseq	0.699	0.218
low_pH_jason_reseq	0.607	-0.591
NO_jason_reseq	-0.074	-0.412
B6_jason_reseq	-0.071	-0.317
MHCII_jason_reseq	0.25	0.082
Isoniazid02	0.594	0.674
Rifampicin4	0.016	0.103
Ethambutol3	0.82	0.818
Meropenem3	0.283	0.367
Vancomycin16	0.26	0.257
Rv2680_day32	0.157	0.459
H37Rv_KO_MarP	-0.183	0.464
hypoxia_3wks	0.419	0.016
hypoxia_6wks	-0.188	-0.495
glycerol	-0.238	-1.678
cholesterol	-0.308	-0.524
AJ	-0.274	0.212
Bibs02	0.323	0.257
Bibs02c	-0.229	0.382
BL6	0.323	-0.448
BL6a	-0.159	0.211
BXD01	0.074	-0.022
BXD010	0.339	0.164
BXD011	-0.185	0.071
BXD03	-0.36	-0.041
BXD04	-0.151	0.179
BXD05	0.207	0.198
BXD06	0.061	-0.162
BXD07	0.032	-0.105
BXD08	0.145	0.008
BXD09	-0.178	-0.21
CAST	-0.137	0.092
CCcont	-0.083	-0.071
DS01	-0.289	0.269
DS02	0.058	0.263
DS04	0.829	0.548
DS0c	-0.878	0.225
GP01	0.011	0.408
GP02	0.887	0.959
GP0c	-0.386	-0.35
NOD	0.971	0.937
NZO	-0.818	0.475
PWK	0.328	0.485
H37Rv_KO_CtpC	0.37	0.377
H37Rv_KO_CtpD	0.183	0.694
H37Rv_KO_Rv1272	0.231	0.96
H37Rv_KO_SugABC	0.316	0.495
H37Rv_KO_MbtN	0.398	0.425
Trans05	0.84	1.058
macrophage_unactivated	1.133	0.136
IL1	-0.157	-0.744
Rapamycin	0.138	-0.276
Tcell	0.254	-0.306
GMCSF	0.319	-0.177
IFNab	0.381	-0.414
IFNg	0.436	-0.179
IFNg_GMCSF1	0.264	0.277
Rv1432_day32	0.15	0.365
Rv1565c_day32	-0.046	0.303
secA2_input	0.081	-0.524
delta_Rv3594	0.0	0.366
delta_Rv3717	-0.157	-0.198
delta_Rv3811	0.071	0.26
delta_Rv0954	-0.243	-0.059
PonA1	-0.032	-0.108
EccD1_KO	0.391	0.28
EspI_KO	0.747	0.342
PE35_KO	0.688	0.586
PPE68_KO	0.31	0.394
glycerol2	0.73	0.509
lignocerate	0.537	0.6
oleate	0.654	0.509
phosphatidylcholine	0.704	0.71
acetate	-0.446	0.166
glucAc	-0.61	0.194
Rv0950ko	-0.112	0.066
Rv1096ko	-0.685	-0.682
Rv3684ko	0.255	-0.465
delta_otsA_trehalose	0.813	0.014