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 Rv0393/-

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

	Rv1204c/-	Rv0393/-
Fe_supp_jason_reseq	-0.838	-0.822
low_pH_jason_reseq	0.438	0.042
NO_jason_reseq	0.299	-0.79
B6_jason_reseq	0.67	0.352
MHCII_jason_reseq	-0.108	-0.898
Isoniazid02	-0.231	-0.109
Rifampicin4	0.092	0.555
Ethambutol3	2.259	0.427
Meropenem3	-0.092	0.975
Vancomycin16	-0.204	-0.082
Rv2680_day32	-0.836	-0.373
H37Rv_KO_MarP	-0.179	0.689
hypoxia_3wks	-0.77	-0.459
hypoxia_6wks	0.355	-1.052
glycerol	0.105	0.638
cholesterol	0.025	0.513
AJ	0.225	0.903
Bibs02	-1.424	0.691
Bibs02c	0.427	0.268
BL6	0.626	0.399
BL6a	0.103	0.0
BXD01	0.38	0.447
BXD010	0.155	0.207
BXD011	0.017	-0.842
BXD03	0.593	-0.639
BXD04	0.909	0.133
BXD05	-0.086	0.265
BXD06	0.113	-0.274
BXD07	0.134	0.062
BXD08	0.625	1.08
BXD09	-0.063	-0.164
CAST	1.405	1.356
CCcont	-0.182	0.028
DS01	0.76	0.216
DS02	0.211	0.548
DS04	0.878	0.419
DS0c	0.13	0.242
GP01	-1.315	0.394
GP02	-0.203	-0.159
GP0c	-0.158	0.114
NOD	-0.05	-0.018
NZO	-0.204	0.838
PWK	0.922	1.395
H37Rv_KO_CtpC	0.921	0.34
H37Rv_KO_CtpD	0.537	-0.469
H37Rv_KO_Rv1272	0.154	-0.152
H37Rv_KO_SugABC	0.302	0.959
H37Rv_KO_MbtN	-0.116	0.132
Trans05	0.458	0.539
macrophage_unactivated	-0.679	-0.685
IL1	-0.344	-0.276
Rapamycin	-0.396	0.049
Tcell	0.169	0.121
GMCSF	0.016	-0.399
IFNab	0.018	-1.046
IFNg	-0.556	-0.871
IFNg_GMCSF1	-0.075	-0.311
Rv1432_day32	-0.395	0.046
Rv1565c_day32	-0.686	-1.264
secA2_input	0.6	1.14
delta_Rv3594	0.207	0.017
delta_Rv3717	0.52	0.042
delta_Rv3811	-0.396	-0.21
delta_Rv0954	0.93	0.106
PonA1	0.394	0.38
EccD1_KO	1.414	0.145
EspI_KO	-0.177	-0.459
PE35_KO	0.198	-0.298
PPE68_KO	-0.141	-0.413
glycerol2	0.687	0.532
lignocerate	1.101	0.795
oleate	0.712	0.275
phosphatidylcholine	1.373	0.868
acetate	0.746	-0.042
glucAc	0.247	0.332
Rv0950ko	0.353	0.516
Rv1096ko	0.443	1.258
Rv3684ko	-0.75	0.193
delta_otsA_trehalose	-0.159	-0.147