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 Rv2271/-:

update plot	correlation	link to info on gene
Rv0235c/-	(cc=0.4109)	info on Rv0235c/-
Rv3446c/-	(cc=0.3877)	info on Rv3446c/-
Rv1581c/-	(cc=0.3805)	info on Rv1581c/-
Rv1049/-	(cc=0.3716)	info on Rv1049/-
Rv0541c/-	(cc=0.3631)	info on Rv0541c/-
Rv3181c/-	(cc=0.361)	info on Rv3181c/-
Rv2927c/-	(cc=0.3578)	info on Rv2927c/-
Rv1214c/PE14	(cc=0.3555)	info on Rv1214c/PE14
Rv0349/-	(cc=0.3553)	info on Rv0349/-
Rv1217c/-	(cc=0.3542)	info on Rv1217c/-

Correlation of Rv2271/- with Rv0235c/-

Normalized LFCs for Rv2271/-:
(description and provenance of datasets)

	Rv2271/-	Rv0235c/-
Fe_supp_jason_reseq	-1.872	-0.783
low_pH_jason_reseq	1.482	-0.204
NO_jason_reseq	0.507	0.0
B6_jason_reseq	-0.965	-0.687
MHCII_jason_reseq	-2.651	-0.63
Isoniazid02	0.306	0.164
Rifampicin4	-0.712	0.0
Ethambutol3	-0.089	0.035
Meropenem3	-0.399	0.035
Vancomycin16	0.621	0.0
Rv2680_day32	0.704	0.105
H37Rv_KO_MarP	-0.312	0.155
hypoxia_3wks	-0.132	0.191
hypoxia_6wks	-0.898	-0.443
glycerol	-0.929	0.075
cholesterol	-1.024	-0.055
AJ	0.121	0.086
Bibs02	-1.293	-1.13
Bibs02c	0.596	0.039
BL6	-0.682	1.27
BL6a	0.397	1.072
BXD01	0.567	1.126
BXD010	0.022	0.904
BXD011	-0.13	0.508
BXD03	1.009	1.42
BXD04	-0.022	1.098
BXD05	0.28	0.447
BXD06	-0.441	0.863
BXD07	0.036	1.406
BXD08	-0.024	0.874
BXD09	0.282	0.578
CAST	0.594	0.205
CCcont	0.321	1.15
DS01	-0.459	0.044
DS02	-1.355	-0.082
DS04	1.029	0.394
DS0c	-0.468	-0.041
GP01	0.928	1.319
GP02	-0.696	2.076
GP0c	-0.185	0.788
NOD	1.695	0.866
NZO	-1.243	0.212
PWK	0.0	0.571
H37Rv_KO_CtpC	0.808	1.221
H37Rv_KO_CtpD	0.491	-0.661
H37Rv_KO_Rv1272	-1.18	0.451
H37Rv_KO_SugABC	0.673	1.891
H37Rv_KO_MbtN	-0.992	0.462
Trans05	-1.378	1.231
macrophage_unactivated	2.459	0.805
IL1	-0.801	0.0
Rapamycin	-1.906	-0.592
Tcell	-0.078	0.209
GMCSF	0.805	0.708
IFNab	-0.65	-0.756
IFNg	0.094	-0.775
IFNg_GMCSF1	-0.424	-0.666
Rv1432_day32	-0.794	1.25
Rv1565c_day32	0.63	0.0
secA2_input	-0.322	-0.031
delta_Rv3594	1.663	0.909
delta_Rv3717	1.505	0.893
delta_Rv3811	2.738	0.721
delta_Rv0954	0.929	0.699
PonA1	0.165	0.278
EccD1_KO	-0.71	0.0
EspI_KO	-1.109	-0.419
PE35_KO	-0.21	-0.28
PPE68_KO	-0.032	0.099
glycerol2	0.142	1.1
lignocerate	0.307	0.956
oleate	0.18	0.719
phosphatidylcholine	0.104	0.634
acetate	-0.13	0.459
glucAc	0.244	1.092
Rv0950ko	0.317	-0.292
Rv1096ko	-0.431	-0.048
Rv3684ko	-0.989	-0.373
delta_otsA_trehalose	-0.578	-1.372