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 Rv3008/-

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

	Rv1418/lprH	Rv3008/-
Fe_supp_jason_reseq	-0.534	-0.606
low_pH_jason_reseq	-0.478	-0.141
NO_jason_reseq	-0.284	0.326
B6_jason_reseq	0.122	-0.509
MHCII_jason_reseq	0.04	0.113
Isoniazid02	-0.451	-0.685
Rifampicin4	0.883	0.75
Ethambutol3	-0.659	0.227
Meropenem3	-0.52	-0.389
Vancomycin16	0.387	-0.501
Rv2680_day32	-0.721	-0.706
H37Rv_KO_MarP	0.84	0.126
hypoxia_3wks	-0.403	-0.036
hypoxia_6wks	-0.161	-0.217
glycerol	-0.173	-0.032
cholesterol	-0.01	0.121
AJ	0.134	0.176
Bibs02	-0.156	0.612
Bibs02c	-0.247	0.518
BL6	0.654	0.415
BL6a	0.565	0.713
BXD01	0.552	0.137
BXD010	0.581	-0.213
BXD011	0.602	0.531
BXD03	0.566	0.571
BXD04	0.524	0.28
BXD05	0.86	0.803
BXD06	0.752	0.701
BXD07	1.155	0.541
BXD08	0.666	0.64
BXD09	0.909	0.549
CAST	0.352	-0.504
CCcont	0.066	-0.029
DS01	0.315	0.616
DS02	0.682	0.813
DS04	0.382	0.141
DS0c	0.273	0.762
GP01	-0.24	1.135
GP02	-0.603	-0.386
GP0c	-0.187	0.132
NOD	0.225	-0.054
NZO	0.488	-0.198
PWK	0.56	0.406
H37Rv_KO_CtpC	-0.291	0.288
H37Rv_KO_CtpD	1.111	0.73
H37Rv_KO_Rv1272	-0.01	0.016
H37Rv_KO_SugABC	0.288	-0.085
H37Rv_KO_MbtN	-0.29	0.299
Trans05	0.249	0.517
macrophage_unactivated	0.669	0.221
IL1	0.442	0.243
Rapamycin	0.651	0.411
Tcell	-0.648	0.192
GMCSF	0.018	0.446
IFNab	-0.109	0.19
IFNg	0.329	0.187
IFNg_GMCSF1	0.666	0.487
Rv1432_day32	1.027	-0.078
Rv1565c_day32	0.771	0.051
secA2_input	-0.559	-0.326
delta_Rv3594	-0.069	0.058
delta_Rv3717	0.274	-0.141
delta_Rv3811	0.228	0.165
delta_Rv0954	0.093	0.327
PonA1	1.154	0.967
EccD1_KO	0.194	-0.312
EspI_KO	-0.106	-0.893
PE35_KO	-1.129	-0.531
PPE68_KO	-0.534	-0.694
glycerol2	0.185	0.419
lignocerate	-0.279	0.388
oleate	0.526	0.496
phosphatidylcholine	0.343	0.507
acetate	-0.416	-0.354
glucAc	-0.49	-0.239
Rv0950ko	0.434	0.326
Rv1096ko	0.863	0.232
Rv3684ko	0.347	0.432
delta_otsA_trehalose	-1.113	-0.559