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 Rv1482c/-:

update plot	correlation	link to info on gene
Rv1215c/-	(cc=0.6263)	info on Rv1215c/-
Rv1616/-	(cc=0.5739)	info on Rv1616/-
Rv0149/-	(cc=0.5435)	info on Rv0149/-
Rv1164/narI	(cc=0.5358)	info on Rv1164/narI
Rv1816/-	(cc=0.5273)	info on Rv1816/-
Rv2305/-	(cc=0.5035)	info on Rv2305/-
Rv1831/-	(cc=0.4994)	info on Rv1831/-
Rv3398c/idsA1	(cc=0.4962)	info on Rv3398c/idsA1
Rv2389c/rpfD	(cc=0.4939)	info on Rv2389c/rpfD
Rv2451/-	(cc=0.4923)	info on Rv2451/-

Correlation of Rv1482c/- with Rv1816/-

Normalized LFCs for Rv1482c/-:
(description and provenance of datasets)

	Rv1482c/-	Rv1816/-
Fe_supp_jason_reseq	0.286	-1.036
low_pH_jason_reseq	-0.639	-1.098
NO_jason_reseq	0.417	-0.286
B6_jason_reseq	-0.856	-0.699
MHCII_jason_reseq	-1.002	-2.165
Isoniazid02	-0.009	1.592
Rifampicin4	0.173	0.336
Ethambutol3	1.923	1.629
Meropenem3	1.896	1.416
Vancomycin16	0.305	-0.117
Rv2680_day32	0.067	-0.323
H37Rv_KO_MarP	0.024	0.264
hypoxia_3wks	0.231	0.112
hypoxia_6wks	-0.013	0.058
glycerol	-0.257	-0.601
cholesterol	-0.321	0.664
AJ	0.039	-0.343
Bibs02	-0.729	0.616
Bibs02c	-0.061	-0.27
BL6	0.836	0.778
BL6a	0.509	0.446
BXD01	0.713	0.319
BXD010	0.887	0.329
BXD011	0.125	0.821
BXD03	0.825	0.447
BXD04	0.434	0.31
BXD05	0.979	1.023
BXD06	0.276	0.666
BXD07	0.398	0.33
BXD08	0.348	0.367
BXD09	0.482	0.464
CAST	-0.264	-0.115
CCcont	0.1	-0.14
DS01	-0.732	0.038
DS02	-0.452	-0.948
DS04	0.427	-0.943
DS0c	-0.222	0.201
GP01	-0.306	0.792
GP02	0.225	0.198
GP0c	0.286	0.511
NOD	-0.187	-0.055
NZO	0.477	-0.616
PWK	1.599	0.637
H37Rv_KO_CtpC	0.9	0.498
H37Rv_KO_CtpD	0.273	1.05
H37Rv_KO_Rv1272	0.552	1.264
H37Rv_KO_SugABC	0.339	-0.758
H37Rv_KO_MbtN	0.431	0.488
Trans05	1.091	0.988
macrophage_unactivated	-0.36	0.202
IL1	0.344	-0.409
Rapamycin	-0.144	0.267
Tcell	0.551	0.182
GMCSF	0.605	0.23
IFNab	0.121	-0.281
IFNg	0.224	0.15
IFNg_GMCSF1	0.842	0.713
Rv1432_day32	1.348	-0.016
Rv1565c_day32	0.619	0.185
secA2_input	-0.791	0.158
delta_Rv3594	-0.552	-0.366
delta_Rv3717	-0.644	0.035
delta_Rv3811	-0.761	0.162
delta_Rv0954	-0.652	0.045
PonA1	0.016	-0.335
EccD1_KO	1.181	0.826
EspI_KO	0.65	1.095
PE35_KO	0.875	0.303
PPE68_KO	0.873	0.48
glycerol2	-0.328	-0.265
lignocerate	-0.412	-0.309
oleate	0.388	0.065
phosphatidylcholine	-0.146	0.09
acetate	-0.818	-0.422
glucAc	-0.968	-0.485
Rv0950ko	0.323	0.814
Rv1096ko	0.036	0.353
Rv3684ko	0.35	-0.514
delta_otsA_trehalose	-1.002	0.084