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 Rv0220/lipC:

update plot	correlation	link to info on gene
Rv0822c/-	(cc=0.6166)	info on Rv0822c/-
Rv3675/-	(cc=0.5392)	info on Rv3675/-
Rv0222/echA1	(cc=0.534)	info on Rv0222/echA1
Rv3840/-	(cc=0.532)	info on Rv3840/-
Rv1517/-	(cc=0.5306)	info on Rv1517/-
Rv2443/dctA	(cc=0.5285)	info on Rv2443/dctA
Rv2584c/apt	(cc=0.5261)	info on Rv2584c/apt
Rv1720c/vapC12	(cc=0.522)	info on Rv1720c/vapC12
Rv2430c/PPE41	(cc=0.5191)	info on Rv2430c/PPE41
Rv3847/-	(cc=0.5191)	info on Rv3847/-

Correlation of Rv0220/lipC with Rv3675/-

Normalized LFCs for Rv0220/lipC:
(description and provenance of datasets)

	Rv0220/lipC	Rv3675/-
Fe_supp_jason_reseq	-0.172	0.802
low_pH_jason_reseq	-0.564	-1.7
NO_jason_reseq	-0.551	0.743
B6_jason_reseq	-0.6	-0.368
MHCII_jason_reseq	-0.075	0.12
Isoniazid02	0.143	0.37
Rifampicin4	-0.596	-1.432
Ethambutol3	0.452	1.859
Meropenem3	0.041	-0.842
Vancomycin16	-0.329	-0.578
Rv2680_day32	-0.125	-1.557
H37Rv_KO_MarP	0.301	0.919
hypoxia_3wks	0.195	-1.424
hypoxia_6wks	-0.106	-1.201
glycerol	0.65	0.66
cholesterol	0.142	-0.749
AJ	0.155	0.071
Bibs02	1.02	-0.215
Bibs02c	-0.815	-0.54
BL6	0.304	0.578
BL6a	-0.069	0.794
BXD01	0.022	0.865
BXD010	0.506	1.314
BXD011	0.472	0.573
BXD03	1.002	0.839
BXD04	0.896	0.918
BXD05	1.107	1.307
BXD06	0.131	1.145
BXD07	0.579	0.924
BXD08	0.445	1.04
BXD09	0.435	0.715
CAST	0.592	0.612
CCcont	-0.279	1.172
DS01	0.51	1.138
DS02	0.247	1.459
DS04	0.419	-0.339
DS0c	0.179	0.347
GP01	1.623	0.881
GP02	1.416	1.938
GP0c	0.602	0.888
NOD	0.454	0.672
NZO	-0.254	0.597
PWK	0.311	1.353
H37Rv_KO_CtpC	-0.086	-0.168
H37Rv_KO_CtpD	0.939	0.061
H37Rv_KO_Rv1272	0.683	0.375
H37Rv_KO_SugABC	0.814	0.469
H37Rv_KO_MbtN	-0.376	0.327
Trans05	-0.576	-0.307
macrophage_unactivated	0.922	1.209
IL1	0.142	0.765
Rapamycin	-0.203	-0.267
Tcell	-0.052	0.57
GMCSF	0.842	0.573
IFNab	0.638	0.23
IFNg	0.331	1.251
IFNg_GMCSF1	0.663	0.666
Rv1432_day32	0.0	0.164
Rv1565c_day32	-0.823	-0.452
secA2_input	-0.817	-0.218
delta_Rv3594	-0.242	-0.515
delta_Rv3717	-0.307	-0.541
delta_Rv3811	-0.299	0.058
delta_Rv0954	0.227	0.154
PonA1	0.084	1.21
EccD1_KO	-0.628	-0.605
EspI_KO	-0.642	-0.867
PE35_KO	-0.362	0.058
PPE68_KO	-0.889	-0.662
glycerol2	0.021	0.545
lignocerate	-0.357	0.656
oleate	0.142	0.176
phosphatidylcholine	-0.172	0.641
acetate	-0.427	-0.17
glucAc	-0.523	-0.329
Rv0950ko	-0.314	0.579
Rv1096ko	0.235	0.317
Rv3684ko	-0.94	0.383
delta_otsA_trehalose	0.317	1.136