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 Rv1838c/vapC13:

update plot	correlation	link to info on gene
Rv1527c/pks5	(cc=0.5927)	info on Rv1527c/pks5
Rv1834/lipZ	(cc=0.5892)	info on Rv1834/lipZ
Rv3196/-	(cc=0.582)	info on Rv3196/-
Rv3056/dinP	(cc=0.5482)	info on Rv3056/dinP
Rv3096/-	(cc=0.5437)	info on Rv3096/-
Rv1999c/-	(cc=0.5268)	info on Rv1999c/-
Rv2008c/-	(cc=0.5251)	info on Rv2008c/-
Rv1057/-	(cc=0.5168)	info on Rv1057/-
Rv3354/-	(cc=0.5156)	info on Rv3354/-
Rv3059/cyp136	(cc=0.5127)	info on Rv3059/cyp136

Correlation of Rv1838c/vapC13 with Rv1527c/pks5

Normalized LFCs for Rv1838c/vapC13:
(description and provenance of datasets)

	Rv1838c/vapC13	Rv1527c/pks5
Fe_supp_jason_reseq	0.268	0.175
low_pH_jason_reseq	-1.65	-0.587
NO_jason_reseq	-0.465	-0.155
B6_jason_reseq	-0.765	0.181
MHCII_jason_reseq	0.325	0.229
Isoniazid02	-0.079	-0.015
Rifampicin4	-0.26	-0.057
Ethambutol3	0.559	0.225
Meropenem3	0.066	0.915
Vancomycin16	-1.321	-0.056
Rv2680_day32	-0.59	-0.199
H37Rv_KO_MarP	-0.045	0.189
hypoxia_3wks	-0.387	0.159
hypoxia_6wks	-0.04	0.294
glycerol	0.554	0.196
cholesterol	0.531	0.013
AJ	0.664	0.622
Bibs02	0.465	0.15
Bibs02c	-0.367	0.477
BL6	-1.175	0.251
BL6a	-0.568	0.066
BXD01	-1.176	-0.215
BXD010	-1.085	0.021
BXD011	-0.65	-0.262
BXD03	-0.666	-0.108
BXD04	-0.932	-0.508
BXD05	-0.602	0.022
BXD06	-0.958	-0.39
BXD07	-0.208	-0.036
BXD08	-0.989	0.022
BXD09	-0.639	-0.304
CAST	-0.482	-0.12
CCcont	-0.563	0.025
DS01	0.929	0.554
DS02	0.63	0.126
DS04	0.696	0.455
DS0c	0.165	0.325
GP01	1.255	1.712
GP02	-0.457	0.477
GP0c	-0.014	0.555
NOD	0.22	0.304
NZO	0.363	0.314
PWK	0.172	-0.017
H37Rv_KO_CtpC	0.191	0.314
H37Rv_KO_CtpD	0.384	0.143
H37Rv_KO_Rv1272	-0.108	0.415
H37Rv_KO_SugABC	-0.078	0.611
H37Rv_KO_MbtN	-0.421	-0.13
Trans05	-0.038	0.289
macrophage_unactivated	-0.956	-0.158
IL1	0.264	-0.074
Rapamycin	0.399	-0.114
Tcell	-0.824	-0.081
GMCSF	0.143	0.19
IFNab	-0.998	-0.151
IFNg	0.839	-0.134
IFNg_GMCSF1	-0.094	0.189
Rv1432_day32	0.213	0.216
Rv1565c_day32	0.39	-0.104
secA2_input	0.25	0.523
delta_Rv3594	0.508	0.021
delta_Rv3717	-0.244	-0.374
delta_Rv3811	-0.201	0.312
delta_Rv0954	0.229	-0.172
PonA1	0.473	0.492
EccD1_KO	0.829	0.089
EspI_KO	1.092	0.262
PE35_KO	0.064	0.23
PPE68_KO	0.765	0.378
glycerol2	1.007	0.46
lignocerate	1.325	0.673
oleate	-0.196	0.373
phosphatidylcholine	1.109	0.696
acetate	0.449	0.845
glucAc	0.59	0.441
Rv0950ko	0.458	0.422
Rv1096ko	0.145	0.311
Rv3684ko	0.282	0.498
delta_otsA_trehalose	-0.033	0.551