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 Rv1418/lprH:

update plot	correlation	link to info on gene
Rv3008/-	(cc=0.56)	info on Rv3008/-
Rv0588/yrbE2B	(cc=0.4638)	info on Rv0588/yrbE2B
Rv0052/-	(cc=0.4475)	info on Rv0052/-
Rv3521/-	(cc=0.4389)	info on Rv3521/-
Rv0781/ptrBa	(cc=0.4335)	info on Rv0781/ptrBa
Rv0500/proC	(cc=0.429)	info on Rv0500/proC
Rv3125c/PPE49	(cc=0.426)	info on Rv3125c/PPE49
Rv3796/-	(cc=0.4236)	info on Rv3796/-
Rv1050/-	(cc=0.4206)	info on Rv1050/-
Rv0828c/-	(cc=0.4177)	info on Rv0828c/-

Correlation of Rv1418/lprH with Rv1050/-

Normalized LFCs for Rv1418/lprH:
(description and provenance of datasets)

	Rv1418/lprH	Rv1050/-
Fe_supp_jason_reseq	-0.534	-0.873
low_pH_jason_reseq	-0.478	-0.806
NO_jason_reseq	-0.284	-1.205
B6_jason_reseq	0.122	-0.97
MHCII_jason_reseq	0.04	-0.189
Isoniazid02	-0.451	-3.091
Rifampicin4	0.883	-1.392
Ethambutol3	-0.659	-3.159
Meropenem3	-0.52	-2.715
Vancomycin16	0.387	-1.605
Rv2680_day32	-0.721	1.019
H37Rv_KO_MarP	0.84	-0.089
hypoxia_3wks	-0.403	-1.109
hypoxia_6wks	-0.161	1.62
glycerol	-0.173	0.813
cholesterol	-0.01	0.39
AJ	0.134	-0.65
Bibs02	-0.156	0.861
Bibs02c	-0.247	-0.226
BL6	0.654	-1.223
BL6a	0.565	0.771
BXD01	0.552	0.727
BXD010	0.581	0.745
BXD011	0.602	1.236
BXD03	0.566	0.755
BXD04	0.524	1.105
BXD05	0.86	1.459
BXD06	0.752	1.934
BXD07	1.155	1.492
BXD08	0.666	0.42
BXD09	0.909	1.584
CAST	0.352	0.35
CCcont	0.066	0.173
DS01	0.315	-0.099
DS02	0.682	1.134
DS04	0.382	0.642
DS0c	0.273	0.405
GP01	-0.24	1.106
GP02	-0.603	1.026
GP0c	-0.187	0.594
NOD	0.225	-0.57
NZO	0.488	0.474
PWK	0.56	0.735
H37Rv_KO_CtpC	-0.291	0.275
H37Rv_KO_CtpD	1.111	2.006
H37Rv_KO_Rv1272	-0.01	0.029
H37Rv_KO_SugABC	0.288	-1.415
H37Rv_KO_MbtN	-0.29	0.061
Trans05	0.249	-0.401
macrophage_unactivated	0.669	-2.901
IL1	0.442	0.712
Rapamycin	0.651	-0.964
Tcell	-0.648	-0.899
GMCSF	0.018	-2.03
IFNab	-0.109	-0.26
IFNg	0.329	1.045
IFNg_GMCSF1	0.666	-0.412
Rv1432_day32	1.027	0.725
Rv1565c_day32	0.771	-0.201
secA2_input	-0.559	-1.839
delta_Rv3594	-0.069	-0.563
delta_Rv3717	0.274	-0.405
delta_Rv3811	0.228	-0.805
delta_Rv0954	0.093	-1.158
PonA1	1.154	0.633
EccD1_KO	0.194	-0.414
EspI_KO	-0.106	-0.174
PE35_KO	-1.129	-0.563
PPE68_KO	-0.534	-0.064
glycerol2	0.185	-1.712
lignocerate	-0.279	-1.652
oleate	0.526	-0.8
phosphatidylcholine	0.343	-1.499
acetate	-0.416	-0.713
glucAc	-0.49	-1.772
Rv0950ko	0.434	0.838
Rv1096ko	0.863	0.763
Rv3684ko	0.347	1.385
delta_otsA_trehalose	-1.113	-1.561