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 Rv0870c/-:

update plot	correlation	link to info on gene
Rv2237A/-	(cc=0.6004)	info on Rv2237A/-
Rv1038c/esxJ	(cc=0.5996)	info on Rv1038c/esxJ
Rv2638/-	(cc=0.5962)	info on Rv2638/-
Rv3605c/-	(cc=0.5959)	info on Rv3605c/-
Rv2577/-	(cc=0.5885)	info on Rv2577/-
Rv3506/fadD17	(cc=0.5738)	info on Rv3506/fadD17
Rv1057/-	(cc=0.5734)	info on Rv1057/-
Rv2240c/-	(cc=0.5598)	info on Rv2240c/-
Rv3081/-	(cc=0.5467)	info on Rv3081/-
Rv2426c/-	(cc=0.5439)	info on Rv2426c/-

Correlation of Rv0870c/- with Rv2240c/-

Normalized LFCs for Rv0870c/-:
(description and provenance of datasets)

	Rv0870c/-	Rv2240c/-
Fe_supp_jason_reseq	-0.062	0.867
low_pH_jason_reseq	-0.308	-0.343
NO_jason_reseq	1.013	-0.452
B6_jason_reseq	-0.715	-1.099
MHCII_jason_reseq	0.731	-0.179
Isoniazid02	-0.664	0.039
Rifampicin4	-0.485	0.704
Ethambutol3	-0.136	0.883
Meropenem3	0.908	1.139
Vancomycin16	0.088	0.955
Rv2680_day32	-0.139	-0.647
H37Rv_KO_MarP	0.68	0.401
hypoxia_3wks	-0.642	-0.797
hypoxia_6wks	-0.576	-0.616
glycerol	-0.799	-0.462
cholesterol	-0.376	-0.669
AJ	-0.373	-1.476
Bibs02	0.491	-1.416
Bibs02c	0.109	-0.881
BL6	-0.324	0.072
BL6a	-0.696	-0.74
BXD01	-0.852	-1.069
BXD010	-0.156	-0.365
BXD011	-0.188	-0.418
BXD03	-1.092	-0.744
BXD04	-0.503	-1.015
BXD05	-0.666	-0.442
BXD06	-0.854	-0.352
BXD07	-0.255	-0.606
BXD08	-0.708	-0.9
BXD09	-0.85	-0.095
CAST	-0.654	-1.185
CCcont	0.553	0.372
DS01	0.036	-0.938
DS02	0.025	-0.06
DS04	0.044	-1.639
DS0c	0.409	0.503
GP01	0.381	-0.339
GP02	0.828	0.732
GP0c	-0.726	0.301
NOD	-0.187	-1.791
NZO	0.023	-1.568
PWK	-0.509	-0.308
H37Rv_KO_CtpC	-0.845	-0.807
H37Rv_KO_CtpD	0.934	1.292
H37Rv_KO_Rv1272	-2.361	-0.911
H37Rv_KO_SugABC	-1.757	1.024
H37Rv_KO_MbtN	-1.421	-1.696
Trans05	-0.187	-0.15
macrophage_unactivated	-1.884	-0.028
IL1	0.252	1.332
Rapamycin	-0.181	1.814
Tcell	-0.606	-0.495
GMCSF	-0.269	2.009
IFNab	-0.308	1.146
IFNg	-0.208	0.796
IFNg_GMCSF1	-0.503	0.691
Rv1432_day32	1.802	-0.141
Rv1565c_day32	0.697	0.595
secA2_input	-0.183	-0.668
delta_Rv3594	-0.375	-0.268
delta_Rv3717	-0.852	-0.639
delta_Rv3811	-1.689	-0.473
delta_Rv0954	-0.673	-0.846
PonA1	0.143	-0.507
EccD1_KO	1.095	0.431
EspI_KO	0.744	0.975
PE35_KO	-0.405	0.7
PPE68_KO	-0.893	0.614
glycerol2	1.562	2.79
lignocerate	2.115	3.113
oleate	-0.425	-1.733
phosphatidylcholine	1.562	2.518
acetate	1.637	3.621
glucAc	1.823	3.241
Rv0950ko	0.781	-0.38
Rv1096ko	0.241	-0.021
Rv3684ko	0.848	0.249
delta_otsA_trehalose	0.897	2.537