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 Rv1525/wbbL2:

update plot	correlation	link to info on gene
Rv3628/ppa	(cc=0.6949)	info on Rv3628/ppa
Rv0260c/-	(cc=0.5862)	info on Rv0260c/-
Rv1583c/-	(cc=0.5767)	info on Rv1583c/-
Rv0070c/glyA2	(cc=0.5763)	info on Rv0070c/glyA2
Rv1574/-	(cc=0.5586)	info on Rv1574/-
Rv3518c/cyp142	(cc=0.545)	info on Rv3518c/cyp142
Rv1729c/-	(cc=0.5148)	info on Rv1729c/-
Rv2276/cyp121	(cc=0.5108)	info on Rv2276/cyp121
Rv2775/-	(cc=0.5093)	info on Rv2775/-
Rv3528c/-	(cc=0.5089)	info on Rv3528c/-

Correlation of Rv1525/wbbL2 with Rv3518c/cyp142

Normalized LFCs for Rv1525/wbbL2:
(description and provenance of datasets)

	Rv1525/wbbL2	Rv3518c/cyp142
Fe_supp_jason_reseq	0.587	1.241
low_pH_jason_reseq	-0.303	-0.612
NO_jason_reseq	-1.32	-0.638
B6_jason_reseq	-0.697	0.368
MHCII_jason_reseq	-0.492	0.966
Isoniazid02	0.437	-0.851
Rifampicin4	0.428	-0.1
Ethambutol3	0.13	-0.392
Meropenem3	-0.068	-0.231
Vancomycin16	0.419	0.096
Rv2680_day32	-2.272	-0.065
H37Rv_KO_MarP	0.706	0.549
hypoxia_3wks	-0.167	-0.618
hypoxia_6wks	-0.672	0.493
glycerol	0.0	0.12
cholesterol	0.178	0.119
AJ	0.0	-0.086
Bibs02	0.362	1.864
Bibs02c	1.516	1.172
BL6	1.322	1.405
BL6a	1.435	2.089
BXD01	0.433	0.52
BXD010	0.717	1.162
BXD011	1.699	0.399
BXD03	1.247	0.987
BXD04	0.923	1.283
BXD05	0.787	0.307
BXD06	0.996	0.776
BXD07	1.396	1.2
BXD08	0.905	1.293
BXD09	1.485	1.156
CAST	0.192	0.055
CCcont	1.377	1.187
DS01	-0.45	-0.209
DS02	-0.096	0.454
DS04	-0.37	-0.146
DS0c	-1.065	-0.566
GP01	0.797	-0.101
GP02	-0.353	1.369
GP0c	1.75	0.592
NOD	-0.205	1.572
NZO	0.0	0.355
PWK	-0.087	-0.452
H37Rv_KO_CtpC	0.824	0.039
H37Rv_KO_CtpD	-0.918	-0.692
H37Rv_KO_Rv1272	1.829	0.527
H37Rv_KO_SugABC	2.147	0.968
H37Rv_KO_MbtN	-0.506	-0.285
Trans05	0.393	0.477
macrophage_unactivated	0.628	0.114
IL1	0.792	1.13
Rapamycin	0.89	0.347
Tcell	0.573	0.45
GMCSF	-0.143	0.557
IFNab	0.671	0.082
IFNg	1.318	0.807
IFNg_GMCSF1	0.839	0.33
Rv1432_day32	0.061	0.0
Rv1565c_day32	-1.085	0.952
secA2_input	-1.431	0.739
delta_Rv3594	-1.53	-1.101
delta_Rv3717	-1.608	-0.522
delta_Rv3811	-1.774	0.54
delta_Rv0954	-2.323	-0.93
PonA1	-1.526	0.223
EccD1_KO	-1.154	-0.204
EspI_KO	-0.471	-0.088
PE35_KO	1.097	0.131
PPE68_KO	1.104	-0.301
glycerol2	0.581	0.446
lignocerate	1.29	1.119
oleate	-1.596	-1.083
phosphatidylcholine	0.762	0.716
acetate	1.76	1.232
glucAc	1.367	0.939
Rv0950ko	-0.199	-0.051
Rv1096ko	0.371	0.051
Rv3684ko	0.593	-0.056
delta_otsA_trehalose	-0.075	-0.457