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 Rv2738c/-:

update plot	correlation	link to info on gene
Rv0399c/lpqK	(cc=0.6205)	info on Rv0399c/lpqK
Rv3919c/gid	(cc=0.5884)	info on Rv3919c/gid
Rv2650c/-	(cc=0.5845)	info on Rv2650c/-
Rv1678/-	(cc=0.5484)	info on Rv1678/-
Rv0160c/PE4	(cc=0.5353)	info on Rv0160c/PE4
Rv3572/-	(cc=0.5225)	info on Rv3572/-
Rv0940c/-	(cc=0.5083)	info on Rv0940c/-
Rv3191c/-	(cc=0.4943)	info on Rv3191c/-
Rv0968/-	(cc=0.4931)	info on Rv0968/-
Rv3291c/lrpA	(cc=0.4894)	info on Rv3291c/lrpA

Correlation of Rv2738c/- with Rv0399c/lpqK

Normalized LFCs for Rv2738c/-:
(description and provenance of datasets)

	Rv2738c/-	Rv0399c/lpqK
Fe_supp_jason_reseq	-0.415	0.215
low_pH_jason_reseq	1.104	0.087
NO_jason_reseq	-1.013	0.522
B6_jason_reseq	-1.973	0.114
MHCII_jason_reseq	-1.598	0.21
Isoniazid02	-4.829	-3.51
Rifampicin4	0.904	0.764
Ethambutol3	-3.412	-2.908
Meropenem3	-3.54	-2.207
Vancomycin16	-1.417	-1.08
Rv2680_day32	-1.982	-0.648
H37Rv_KO_MarP	0.579	-0.277
hypoxia_3wks	-1.388	0.375
hypoxia_6wks	-0.704	1.054
glycerol	1.011	0.107
cholesterol	0.041	0.349
AJ	-0.632	0.153
Bibs02	0.366	-0.076
Bibs02c	0.826	1.291
BL6	-1.448	-0.052
BL6a	0.647	0.936
BXD01	-0.064	0.069
BXD010	0.445	0.39
BXD011	-0.063	-0.185
BXD03	0.92	0.695
BXD04	0.058	0.244
BXD05	0.955	0.488
BXD06	0.235	0.018
BXD07	0.432	0.091
BXD08	0.851	0.444
BXD09	0.013	0.0
CAST	-1.875	0.062
CCcont	-1.564	-0.127
DS01	-0.89	0.544
DS02	0.274	-0.121
DS04	1.116	0.966
DS0c	-1.353	0.523
GP01	-0.109	-0.144
GP02	-0.894	-0.527
GP0c	0.107	0.018
NOD	0.571	1.193
NZO	-0.139	-0.027
PWK	-0.997	0.129
H37Rv_KO_CtpC	1.283	0.086
H37Rv_KO_CtpD	0.387	1.419
H37Rv_KO_Rv1272	0.226	-0.079
H37Rv_KO_SugABC	-1.147	0.683
H37Rv_KO_MbtN	0.393	0.215
Trans05	1.008	0.052
macrophage_unactivated	-0.657	-0.363
IL1	-0.267	-0.78
Rapamycin	0.298	0.381
Tcell	0.456	0.176
GMCSF	-1.048	0.327
IFNab	-0.103	-0.662
IFNg	0.406	-0.051
IFNg_GMCSF1	-0.129	0.443
Rv1432_day32	0.096	0.082
Rv1565c_day32	-0.76	0.269
secA2_input	0.387	0.312
delta_Rv3594	0.277	0.057
delta_Rv3717	0.147	0.115
delta_Rv3811	0.891	-0.028
delta_Rv0954	0.0	-0.96
PonA1	0.19	-0.112
EccD1_KO	0.576	0.161
EspI_KO	0.063	0.274
PE35_KO	-1.138	0.236
PPE68_KO	-0.243	0.259
glycerol2	-0.958	0.238
lignocerate	-0.401	0.524
oleate	-1.46	0.631
phosphatidylcholine	-0.287	0.496
acetate	0.048	0.535
glucAc	-0.127	0.349
Rv0950ko	0.917	0.048
Rv1096ko	-0.051	0.745
Rv3684ko	0.688	-0.321
delta_otsA_trehalose	0.382	0.178