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 Rv1204c/-:

update plot	correlation	link to info on gene
Rv1205/-	(cc=0.4958)	info on Rv1205/-
Rv0539/-	(cc=0.4727)	info on Rv0539/-
Rv2426c/-	(cc=0.4346)	info on Rv2426c/-
Rv1071c/echA9	(cc=0.4318)	info on Rv1071c/echA9
Rv1206/fadD6	(cc=0.4205)	info on Rv1206/fadD6
Rv3463/-	(cc=0.4158)	info on Rv3463/-
Rv1151c/-	(cc=0.3926)	info on Rv1151c/-
Rv0393/-	(cc=0.3923)	info on Rv0393/-
Rv2550c/vapB20	(cc=0.3916)	info on Rv2550c/vapB20
Rv2656c/-	(cc=0.391)	info on Rv2656c/-

Correlation of Rv1204c/- with Rv2550c/vapB20

Normalized LFCs for Rv1204c/-:
(description and provenance of datasets)

	Rv1204c/-	Rv2550c/vapB20
Fe_supp_jason_reseq	-0.838	-1.414
low_pH_jason_reseq	0.438	-0.612
NO_jason_reseq	0.299	-0.546
B6_jason_reseq	0.67	0.49
MHCII_jason_reseq	-0.108	-0.47
Isoniazid02	-0.231	1.2
Rifampicin4	0.092	-0.114
Ethambutol3	2.259	0.626
Meropenem3	-0.092	0.509
Vancomycin16	-0.204	-0.111
Rv2680_day32	-0.836	-1.029
H37Rv_KO_MarP	-0.179	-1.116
hypoxia_3wks	-0.77	0.0
hypoxia_6wks	0.355	0.614
glycerol	0.105	-2.956
cholesterol	0.025	-1.071
AJ	0.225	0.266
Bibs02	-1.424	-0.268
Bibs02c	0.427	0.0
BL6	0.626	-1.436
BL6a	0.103	-0.667
BXD01	0.38	-1.619
BXD010	0.155	-0.947
BXD011	0.017	-1.109
BXD03	0.593	-0.513
BXD04	0.909	-0.915
BXD05	-0.086	-1.97
BXD06	0.113	-1.21
BXD07	0.134	-0.619
BXD08	0.625	-0.905
BXD09	-0.063	-0.564
CAST	1.405	-0.727
CCcont	-0.182	-0.326
DS01	0.76	2.091
DS02	0.211	1.542
DS04	0.878	1.449
DS0c	0.13	1.197
GP01	-1.315	-1.508
GP02	-0.203	-1.597
GP0c	-0.158	-1.132
NOD	-0.05	-0.29
NZO	-0.204	-0.8
PWK	0.922	-0.58
H37Rv_KO_CtpC	0.921	0.164
H37Rv_KO_CtpD	0.537	-1.575
H37Rv_KO_Rv1272	0.154	-1.087
H37Rv_KO_SugABC	0.302	-0.111
H37Rv_KO_MbtN	-0.116	-0.048
Trans05	0.458	0.625
macrophage_unactivated	-0.679	-1.36
IL1	-0.344	-2.572
Rapamycin	-0.396	-2.167
Tcell	0.169	0.15
GMCSF	0.016	0.462
IFNab	0.018	1.001
IFNg	-0.556	-1.323
IFNg_GMCSF1	-0.075	-1.766
Rv1432_day32	-0.395	-0.533
Rv1565c_day32	-0.686	0.305
secA2_input	0.6	0.435
delta_Rv3594	0.207	1.415
delta_Rv3717	0.52	0.245
delta_Rv3811	-0.396	1.425
delta_Rv0954	0.93	0.516
PonA1	0.394	-0.377
EccD1_KO	1.414	0.168
EspI_KO	-0.177	-1.383
PE35_KO	0.198	-0.05
PPE68_KO	-0.141	0.109
glycerol2	0.687	2.802
lignocerate	1.101	2.792
oleate	0.712	0.829
phosphatidylcholine	1.373	2.697
acetate	0.746	3.263
glucAc	0.247	2.21
Rv0950ko	0.353	0.238
Rv1096ko	0.443	-0.863
Rv3684ko	-0.75	-0.331
delta_otsA_trehalose	-0.159	-0.353