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 Rv2366c/-

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

	Rv1079/metB	Rv2366c/-
Fe_supp_jason_reseq	0.647	0.207
low_pH_jason_reseq	-0.433	-0.979
NO_jason_reseq	-1.733	-1.672
B6_jason_reseq	-0.523	-0.538
MHCII_jason_reseq	-1.319	0.26
Isoniazid02	1.083	-0.159
Rifampicin4	0.466	0.417
Ethambutol3	0.364	0.251
Meropenem3	0.29	0.34
Vancomycin16	0.377	0.297
Rv2680_day32	0.109	0.227
H37Rv_KO_MarP	0.0	0.986
hypoxia_3wks	0.534	0.299
hypoxia_6wks	-0.182	0.0
glycerol	-0.932	0.246
cholesterol	0.614	-0.047
AJ	0.044	-0.35
Bibs02	-0.069	0.0
Bibs02c	0.039	0.255
BL6	0.918	0.393
BL6a	0.432	0.406
BXD01	0.343	-0.797
BXD010	0.136	-0.014
BXD011	-0.233	-0.257
BXD03	0.639	-0.679
BXD04	0.787	0.286
BXD05	0.773	0.575
BXD06	0.208	-0.359
BXD07	0.621	0.196
BXD08	0.0	-0.119
BXD09	0.664	-0.143
CAST	-0.871	-0.127
CCcont	1.35	0.306
DS01	-0.044	-1.027
DS02	-0.654	-1.85
DS04	-1.012	0.18
DS0c	0.506	0.201
GP01	0.122	0.0
GP02	-0.701	0.009
GP0c	0.303	0.527
NOD	-0.042	0.519
NZO	-0.551	0.0
PWK	0.142	0.021
H37Rv_KO_CtpC	1.146	0.052
H37Rv_KO_CtpD	1.041	0.514
H37Rv_KO_Rv1272	-0.611	-0.34
H37Rv_KO_SugABC	-0.755	-0.645
H37Rv_KO_MbtN	1.662	0.611
Trans05	-0.393	0.325
macrophage_unactivated	0.426	-0.496
IL1	-0.653	0.421
Rapamycin	-0.147	0.675
Tcell	-0.371	-0.098
GMCSF	-0.301	0.267
IFNab	0.698	0.221
IFNg	0.0	0.449
IFNg_GMCSF1	0.286	0.0
Rv1432_day32	-0.43	-0.884
Rv1565c_day32	-2.263	-1.055
secA2_input	0.348	0.717
delta_Rv3594	1.758	1.715
delta_Rv3717	0.812	0.965
delta_Rv3811	1.08	0.882
delta_Rv0954	1.114	1.877
PonA1	1.012	-0.286
EccD1_KO	-0.122	0.671
EspI_KO	0.0	0.471
PE35_KO	0.543	0.405
PPE68_KO	0.058	0.093
glycerol2	-0.343	-0.165
lignocerate	-1.108	-2.908
oleate	-0.583	-0.74
phosphatidylcholine	-1.615	-1.333
acetate	-1.277	0.419
glucAc	-0.771	0.174
Rv0950ko	1.049	0.042
Rv1096ko	0.808	-0.256
Rv3684ko	1.182	-0.092
delta_otsA_trehalose	0.064	-0.095