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 Rv0853c/pdc

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

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