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 Rv1966/mce3A

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

	Rv1168c/PPE17	Rv1966/mce3A
Fe_supp_jason_reseq	0.699	-0.398
low_pH_jason_reseq	0.607	-0.08
NO_jason_reseq	-0.074	0.152
B6_jason_reseq	-0.071	-1.454
MHCII_jason_reseq	0.25	-0.572
Isoniazid02	0.594	0.298
Rifampicin4	0.016	0.338
Ethambutol3	0.82	1.409
Meropenem3	0.283	0.295
Vancomycin16	0.26	0.414
Rv2680_day32	0.157	-0.197
H37Rv_KO_MarP	-0.183	-0.488
hypoxia_3wks	0.419	0.55
hypoxia_6wks	-0.188	-0.096
glycerol	-0.238	-0.661
cholesterol	-0.308	-1.068
AJ	-0.274	0.492
Bibs02	0.323	0.71
Bibs02c	-0.229	-0.665
BL6	0.323	0.755
BL6a	-0.159	0.255
BXD01	0.074	-0.172
BXD010	0.339	0.623
BXD011	-0.185	0.393
BXD03	-0.36	0.258
BXD04	-0.151	0.275
BXD05	0.207	-0.026
BXD06	0.061	0.379
BXD07	0.032	0.087
BXD08	0.145	0.807
BXD09	-0.178	0.632
CAST	-0.137	0.475
CCcont	-0.083	-0.373
DS01	-0.289	-0.294
DS02	0.058	0.124
DS04	0.829	-0.344
DS0c	-0.878	-0.748
GP01	0.011	0.793
GP02	0.887	0.979
GP0c	-0.386	0.516
NOD	0.971	1.076
NZO	-0.818	-0.354
PWK	0.328	0.405
H37Rv_KO_CtpC	0.37	0.446
H37Rv_KO_CtpD	0.183	0.81
H37Rv_KO_Rv1272	0.231	0.965
H37Rv_KO_SugABC	0.316	-0.827
H37Rv_KO_MbtN	0.398	1.179
Trans05	0.84	0.689
macrophage_unactivated	1.133	-0.145
IL1	-0.157	-0.231
Rapamycin	0.138	-0.046
Tcell	0.254	-0.15
GMCSF	0.319	0.47
IFNab	0.381	-0.26
IFNg	0.436	-0.061
IFNg_GMCSF1	0.264	-0.119
Rv1432_day32	0.15	0.176
Rv1565c_day32	-0.046	0.366
secA2_input	0.081	0.485
delta_Rv3594	0.0	0.026
delta_Rv3717	-0.157	0.031
delta_Rv3811	0.071	-0.451
delta_Rv0954	-0.243	-0.997
PonA1	-0.032	0.255
EccD1_KO	0.391	0.737
EspI_KO	0.747	1.474
PE35_KO	0.688	0.983
PPE68_KO	0.31	1.261
glycerol2	0.73	-0.38
lignocerate	0.537	-0.694
oleate	0.654	0.332
phosphatidylcholine	0.704	-0.181
acetate	-0.446	-1.044
glucAc	-0.61	-0.994
Rv0950ko	-0.112	0.063
Rv1096ko	-0.685	0.371
Rv3684ko	0.255	0.498
delta_otsA_trehalose	0.813	1.92