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 Rv0163/-:

update plot	correlation	link to info on gene
Rv1129c/-	(cc=0.4979)	info on Rv1129c/-
Rv0525/-	(cc=0.4735)	info on Rv0525/-
Rv1928c/-	(cc=0.45)	info on Rv1928c/-
Rv1130/prpD	(cc=0.4491)	info on Rv1130/prpD
Rv2039c/-	(cc=0.4357)	info on Rv2039c/-
Rv3047c/-	(cc=0.4116)	info on Rv3047c/-
Rv0575c/-	(cc=0.4114)	info on Rv0575c/-
Rv3866/espG1	(cc=0.3974)	info on Rv3866/espG1
Rv2044c/-	(cc=0.3867)	info on Rv2044c/-
Rv0380c/-	(cc=0.3842)	info on Rv0380c/-

Correlation of Rv0163/- with Rv1129c/-

Normalized LFCs for Rv0163/-:
(description and provenance of datasets)

	Rv0163/-	Rv1129c/-
Fe_supp_jason_reseq	0.505	-0.485
low_pH_jason_reseq	0.793	-2.491
NO_jason_reseq	0.935	-0.499
B6_jason_reseq	-0.555	-0.574
MHCII_jason_reseq	1.03	-0.478
Isoniazid02	1.069	0.76
Rifampicin4	-0.152	-0.206
Ethambutol3	0.508	1.282
Meropenem3	1.112	0.961
Vancomycin16	-0.252	0.098
Rv2680_day32	-0.171	-0.382
H37Rv_KO_MarP	0.583	0.309
hypoxia_3wks	0.1	-0.53
hypoxia_6wks	-0.205	0.777
glycerol	-0.825	-0.65
cholesterol	-0.989	-3.06
AJ	-0.071	-1.378
Bibs02	-1.676	-3.031
Bibs02c	-1.632	-2.084
BL6	0.517	0.636
BL6a	-0.514	-0.604
BXD01	0.94	-0.175
BXD010	0.167	-0.172
BXD011	0.521	0.657
BXD03	0.57	0.033
BXD04	1.024	0.075
BXD05	0.534	0.248
BXD06	0.422	0.098
BXD07	0.522	0.068
BXD08	0.619	-0.198
BXD09	0.599	-0.149
CAST	0.214	-1.819
CCcont	0.155	0.018
DS01	-0.287	-1.928
DS02	-0.649	-1.837
DS04	0.103	-0.727
DS0c	0.76	-1.439
GP01	-0.074	-1.577
GP02	0.649	-1.548
GP0c	0.433	-0.958
NOD	-0.496	0.028
NZO	-0.074	-1.056
PWK	0.203	-1.348
H37Rv_KO_CtpC	0.562	0.04
H37Rv_KO_CtpD	1.472	0.15
H37Rv_KO_Rv1272	0.662	-0.149
H37Rv_KO_SugABC	-1.417	-1.284
H37Rv_KO_MbtN	0.146	0.313
Trans05	1.344	-0.805
macrophage_unactivated	-0.518	-0.767
IL1	0.151	0.074
Rapamycin	0.157	-1.224
Tcell	0.28	-2.115
GMCSF	0.246	-0.272
IFNab	0.526	0.221
IFNg	0.652	-0.572
IFNg_GMCSF1	0.996	0.229
Rv1432_day32	0.541	-0.562
Rv1565c_day32	-0.036	-0.535
secA2_input	-0.039	-0.637
delta_Rv3594	1.159	0.895
delta_Rv3717	0.637	0.818
delta_Rv3811	1.175	0.608
delta_Rv0954	0.885	-0.24
PonA1	0.68	-0.386
EccD1_KO	0.194	0.22
EspI_KO	0.348	-0.411
PE35_KO	-0.07	0.563
PPE68_KO	0.077	-0.224
glycerol2	0.186	-1.058
lignocerate	-0.06	-0.648
oleate	0.526	-1.07
phosphatidylcholine	-0.195	-0.895
acetate	-0.831	-0.03
glucAc	0.556	0.124
Rv0950ko	0.525	0.338
Rv1096ko	0.612	0.947
Rv3684ko	0.888	0.544
delta_otsA_trehalose	0.386	-1.23