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 Rv1079/metB:

update plot	correlation	link to info on gene
Rv0123/-	(cc=0.5798)	info on Rv0123/-
Rv3755c/-	(cc=0.5299)	info on Rv3755c/-
Rv2366c/-	(cc=0.5203)	info on Rv2366c/-
Rv1422/-	(cc=0.5169)	info on Rv1422/-
Rv2894c/xerC	(cc=0.4972)	info on Rv2894c/xerC
Rv2978c/-	(cc=0.4711)	info on Rv2978c/-
Rv0545c/pitA	(cc=0.4606)	info on Rv0545c/pitA
Rv3715c/recR	(cc=0.4452)	info on Rv3715c/recR
Rv0903c/prrA	(cc=0.4362)	info on Rv0903c/prrA
Rv2231c/cobC	(cc=0.4275)	info on Rv2231c/cobC

Correlation of Rv1079/metB with Rv2978c/-

Normalized LFCs for Rv1079/metB:
(description and provenance of datasets)

	Rv1079/metB	Rv2978c/-
Fe_supp_jason_reseq	0.647	-0.052
low_pH_jason_reseq	-0.433	-0.261
NO_jason_reseq	-1.733	-0.221
B6_jason_reseq	-0.523	-1.303
MHCII_jason_reseq	-1.319	-1.184
Isoniazid02	1.083	0.611
Rifampicin4	0.466	0.753
Ethambutol3	0.364	1.126
Meropenem3	0.29	0.223
Vancomycin16	0.377	-0.146
Rv2680_day32	0.109	-0.586
H37Rv_KO_MarP	0.0	0.179
hypoxia_3wks	0.534	0.211
hypoxia_6wks	-0.182	0.762
glycerol	-0.932	0.0
cholesterol	0.614	0.526
AJ	0.044	0.605
Bibs02	-0.069	-0.49
Bibs02c	0.039	0.377
BL6	0.918	0.505
BL6a	0.432	0.517
BXD01	0.343	0.473
BXD010	0.136	0.334
BXD011	-0.233	0.445
BXD03	0.639	1.353
BXD04	0.787	0.341
BXD05	0.773	-0.054
BXD06	0.208	0.263
BXD07	0.621	1.436
BXD08	0.0	0.367
BXD09	0.664	0.491
CAST	-0.871	0.377
CCcont	1.35	0.478
DS01	-0.044	0.387
DS02	-0.654	-0.944
DS04	-1.012	-1.154
DS0c	0.506	-0.696
GP01	0.122	0.257
GP02	-0.701	0.627
GP0c	0.303	0.169
NOD	-0.042	0.0
NZO	-0.551	-0.806
PWK	0.142	0.418
H37Rv_KO_CtpC	1.146	0.32
H37Rv_KO_CtpD	1.041	0.786
H37Rv_KO_Rv1272	-0.611	-0.086
H37Rv_KO_SugABC	-0.755	1.188
H37Rv_KO_MbtN	1.662	-0.809
Trans05	-0.393	0.38
macrophage_unactivated	0.426	0.922
IL1	-0.653	0.234
Rapamycin	-0.147	-0.7
Tcell	-0.371	-0.619
GMCSF	-0.301	0.0
IFNab	0.698	-0.2
IFNg	0.0	-0.609
IFNg_GMCSF1	0.286	0.342
Rv1432_day32	-0.43	0.541
Rv1565c_day32	-2.263	-3.101
secA2_input	0.348	0.095
delta_Rv3594	1.758	1.892
delta_Rv3717	0.812	0.165
delta_Rv3811	1.08	0.617
delta_Rv0954	1.114	1.336
PonA1	1.012	1.051
EccD1_KO	-0.122	2.601
EspI_KO	0.0	2.524
PE35_KO	0.543	2.018
PPE68_KO	0.058	2.323
glycerol2	-0.343	-0.112
lignocerate	-1.108	-0.51
oleate	-0.583	0.159
phosphatidylcholine	-1.615	0.0
acetate	-1.277	-1.358
glucAc	-0.771	-1.16
Rv0950ko	1.049	0.0
Rv1096ko	0.808	0.76
Rv3684ko	1.182	0.219
delta_otsA_trehalose	0.064	-0.659