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 Rv2392/cysH:

update plot	correlation	link to info on gene
Rv2391/sirA	(cc=0.7309)	info on Rv2391/sirA
Rv1406/fmt	(cc=0.6574)	info on Rv1406/fmt
Rv2445c/ndkA	(cc=0.6185)	info on Rv2445c/ndkA
Rv0287/esxG	(cc=0.5982)	info on Rv0287/esxG
Rv0633c/-	(cc=0.5297)	info on Rv0633c/-
Rv1348/irtA	(cc=0.5216)	info on Rv1348/irtA
Rv3601c/panD	(cc=0.5164)	info on Rv3601c/panD
Rv3139/fadE24	(cc=0.5049)	info on Rv3139/fadE24
Rv3276c/purK	(cc=0.4954)	info on Rv3276c/purK
Rv0410c/pknG	(cc=0.4897)	info on Rv0410c/pknG

Correlation of Rv2392/cysH with Rv0633c/-

Normalized LFCs for Rv2392/cysH:
(description and provenance of datasets)

	Rv2392/cysH	Rv0633c/-
Fe_supp_jason_reseq	1.796	0.415
low_pH_jason_reseq	0.979	-0.738
NO_jason_reseq	0.0	-0.945
B6_jason_reseq	0.0	0.198
MHCII_jason_reseq	0.0	0.257
Isoniazid02	0.351	0.432
Rifampicin4	-0.374	0.133
Ethambutol3	0.0	0.978
Meropenem3	0.151	0.68
Vancomycin16	-0.366	0.186
Rv2680_day32	0.0	-0.867
H37Rv_KO_MarP	-1.081	0.222
hypoxia_3wks	0.0	0.128
hypoxia_6wks	0.0	-0.451
glycerol	0.0	-0.015
cholesterol	0.0	0.486
AJ	0.0	-0.588
Bibs02	0.0	-0.007
Bibs02c	0.0	-0.453
BL6	0.0	0.361
BL6a	0.0	-0.014
BXD01	0.0	-0.601
BXD010	0.0	-0.643
BXD011	0.0	-0.475
BXD03	0.0	-0.13
BXD04	0.0	-0.606
BXD05	0.0	0.458
BXD06	0.0	-0.478
BXD07	0.0	0.159
BXD08	0.0	-0.92
BXD09	0.0	-0.298
CAST	0.0	0.265
CCcont	0.0	-0.473
DS01	0.0	0.068
DS02	0.0	0.236
DS04	0.0	-0.073
DS0c	0.0	-0.132
GP01	0.0	0.26
GP02	0.0	-0.905
GP0c	0.0	-0.438
NOD	0.0	-0.348
NZO	0.0	0.087
PWK	0.0	-0.126
H37Rv_KO_CtpC	0.0	-0.435
H37Rv_KO_CtpD	0.241	-0.528
H37Rv_KO_Rv1272	0.0	-0.708
H37Rv_KO_SugABC	0.0	0.421
H37Rv_KO_MbtN	0.103	-0.998
Trans05	0.0	-0.58
macrophage_unactivated	0.0	-0.464
IL1	0.0	0.546
Rapamycin	0.0	0.89
Tcell	0.0	0.326
GMCSF	0.0	0.605
IFNab	0.0	0.771
IFNg	0.0	0.492
IFNg_GMCSF1	0.0	0.314
Rv1432_day32	0.0	-1.269
Rv1565c_day32	0.0	0.158
secA2_input	-0.412	0.571
delta_Rv3594	0.211	0.162
delta_Rv3717	0.0	-0.259
delta_Rv3811	0.0	-0.17
delta_Rv0954	0.99	0.393
PonA1	0.979	0.617
EccD1_KO	0.378	0.464
EspI_KO	-0.75	-0.445
PE35_KO	0.939	0.432
PPE68_KO	0.71	0.173
glycerol2	0.0	-0.755
lignocerate	0.0	-0.449
oleate	0.0	-0.44
phosphatidylcholine	0.0	-0.647
acetate	0.0	-0.216
glucAc	0.0	0.605
Rv0950ko	1.167	1.098
Rv1096ko	3.339	2.117
Rv3684ko	2.695	2.103
delta_otsA_trehalose	0.133	-0.801