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 Rv2998/-:

update plot	correlation	link to info on gene
Rv1508A/-	(cc=0.5325)	info on Rv1508A/-
Rv2492/-	(cc=0.5168)	info on Rv2492/-
Rv0691c/-	(cc=0.5138)	info on Rv0691c/-
Rv3138/pflA	(cc=0.5123)	info on Rv3138/pflA
Rv0567/-	(cc=0.4873)	info on Rv0567/-
Rv2310/-	(cc=0.4857)	info on Rv2310/-
Rv1269c/-	(cc=0.4854)	info on Rv1269c/-
Rv2880c/-	(cc=0.4774)	info on Rv2880c/-
Rv0934/pstS1	(cc=0.4497)	info on Rv0934/pstS1
Rv0557/mgtA	(cc=0.4462)	info on Rv0557/mgtA

Correlation of Rv2998/- with Rv0567/-

Normalized LFCs for Rv2998/-:
(description and provenance of datasets)

	Rv2998/-	Rv0567/-
Fe_supp_jason_reseq	0.0	0.18
low_pH_jason_reseq	-1.074	-0.55
NO_jason_reseq	0.378	-0.347
B6_jason_reseq	-0.74	0.591
MHCII_jason_reseq	0.621	0.752
Isoniazid02	-0.723	0.033
Rifampicin4	0.647	0.295
Ethambutol3	-0.373	0.338
Meropenem3	-1.329	-0.272
Vancomycin16	-0.568	-0.186
Rv2680_day32	-2.766	-1.09
H37Rv_KO_MarP	0.401	0.19
hypoxia_3wks	0.044	0.662
hypoxia_6wks	0.67	0.825
glycerol	-0.357	-0.358
cholesterol	-0.07	-0.516
AJ	-0.015	0.182
Bibs02	-0.558	0.629
Bibs02c	0.571	0.306
BL6	0.368	0.187
BL6a	0.927	0.227
BXD01	0.66	-0.481
BXD010	-0.018	0.384
BXD011	0.008	0.374
BXD03	0.289	0.128
BXD04	0.389	0.293
BXD05	1.214	-0.224
BXD06	0.642	0.142
BXD07	0.769	0.017
BXD08	0.684	-0.184
BXD09	0.576	-0.043
CAST	0.137	0.294
CCcont	-0.389	-0.187
DS01	-0.536	-0.022
DS02	-0.438	0.115
DS04	-0.208	-0.7
DS0c	1.571	0.68
GP01	1.334	0.528
GP02	-0.538	0.379
GP0c	-0.23	-0.486
NOD	-0.174	0.404
NZO	-0.663	0.364
PWK	0.993	0.266
H37Rv_KO_CtpC	0.613	-0.777
H37Rv_KO_CtpD	1.171	-0.575
H37Rv_KO_Rv1272	0.714	-0.377
H37Rv_KO_SugABC	-1.841	-0.344
H37Rv_KO_MbtN	-1.256	-0.417
Trans05	0.127	-0.094
macrophage_unactivated	0.877	0.057
IL1	0.068	-0.558
Rapamycin	0.071	-0.528
Tcell	0.345	-0.059
GMCSF	1.085	-0.246
IFNab	0.121	-0.475
IFNg	0.535	-0.11
IFNg_GMCSF1	0.214	-0.415
Rv1432_day32	1.7	0.169
Rv1565c_day32	-0.381	-0.368
secA2_input	-0.304	-0.094
delta_Rv3594	-2.168	-1.037
delta_Rv3717	-1.986	-0.708
delta_Rv3811	-1.698	-0.294
delta_Rv0954	-1.265	-0.227
PonA1	-2.401	-0.464
EccD1_KO	1.214	1.039
EspI_KO	0.633	0.761
PE35_KO	1.896	0.741
PPE68_KO	1.609	0.854
glycerol2	0.371	0.406
lignocerate	-0.186	0.744
oleate	0.74	-0.4
phosphatidylcholine	0.577	0.459
acetate	-0.977	0.359
glucAc	-1.121	0.423
Rv0950ko	0.757	0.597
Rv1096ko	1.707	0.338
Rv3684ko	-0.242	0.088
delta_otsA_trehalose	-2.389	-0.88