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 Rv0588/yrbE2B

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

	Rv1418/lprH	Rv0588/yrbE2B
Fe_supp_jason_reseq	-0.534	-0.254
low_pH_jason_reseq	-0.478	-0.761
NO_jason_reseq	-0.284	-0.137
B6_jason_reseq	0.122	-0.85
MHCII_jason_reseq	0.04	-0.215
Isoniazid02	-0.451	-1.806
Rifampicin4	0.883	-0.127
Ethambutol3	-0.659	-1.677
Meropenem3	-0.52	-1.681
Vancomycin16	0.387	-0.639
Rv2680_day32	-0.721	1.112
H37Rv_KO_MarP	0.84	0.102
hypoxia_3wks	-0.403	-0.399
hypoxia_6wks	-0.161	-0.209
glycerol	-0.173	-0.645
cholesterol	-0.01	-0.574
AJ	0.134	0.822
Bibs02	-0.156	0.894
Bibs02c	-0.247	-0.617
BL6	0.654	0.894
BL6a	0.565	0.512
BXD01	0.552	0.738
BXD010	0.581	0.843
BXD011	0.602	1.88
BXD03	0.566	-0.272
BXD04	0.524	1.036
BXD05	0.86	0.348
BXD06	0.752	1.015
BXD07	1.155	0.595
BXD08	0.666	0.753
BXD09	0.909	0.81
CAST	0.352	0.202
CCcont	0.066	0.73
DS01	0.315	-0.755
DS02	0.682	-0.748
DS04	0.382	0.07
DS0c	0.273	-0.165
GP01	-0.24	0.882
GP02	-0.603	-0.047
GP0c	-0.187	0.24
NOD	0.225	-0.042
NZO	0.488	0.306
PWK	0.56	-0.578
H37Rv_KO_CtpC	-0.291	0.348
H37Rv_KO_CtpD	1.111	1.415
H37Rv_KO_Rv1272	-0.01	1.169
H37Rv_KO_SugABC	0.288	0.45
H37Rv_KO_MbtN	-0.29	-0.656
Trans05	0.249	0.093
macrophage_unactivated	0.669	-0.057
IL1	0.442	0.05
Rapamycin	0.651	-0.055
Tcell	-0.648	0.541
GMCSF	0.018	0.396
IFNab	-0.109	0.051
IFNg	0.329	0.315
IFNg_GMCSF1	0.666	-0.654
Rv1432_day32	1.027	0.169
Rv1565c_day32	0.771	0.621
secA2_input	-0.559	0.25
delta_Rv3594	-0.069	0.132
delta_Rv3717	0.274	0.541
delta_Rv3811	0.228	0.913
delta_Rv0954	0.093	0.842
PonA1	1.154	0.546
EccD1_KO	0.194	-0.635
EspI_KO	-0.106	-0.927
PE35_KO	-1.129	-2.042
PPE68_KO	-0.534	-1.699
glycerol2	0.185	-0.029
lignocerate	-0.279	0.421
oleate	0.526	0.274
phosphatidylcholine	0.343	0.112
acetate	-0.416	0.0
glucAc	-0.49	0.042
Rv0950ko	0.434	1.984
Rv1096ko	0.863	2.844
Rv3684ko	0.347	1.503
delta_otsA_trehalose	-1.113	-0.55