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 Rv3605c/-

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

	Rv0870c/-	Rv3605c/-
Fe_supp_jason_reseq	-0.062	-0.088
low_pH_jason_reseq	-0.308	-0.654
NO_jason_reseq	1.013	0.016
B6_jason_reseq	-0.715	0.711
MHCII_jason_reseq	0.731	0.726
Isoniazid02	-0.664	-0.122
Rifampicin4	-0.485	0.498
Ethambutol3	-0.136	0.173
Meropenem3	0.908	-0.329
Vancomycin16	0.088	0.777
Rv2680_day32	-0.139	-0.008
H37Rv_KO_MarP	0.68	0.096
hypoxia_3wks	-0.642	-0.618
hypoxia_6wks	-0.576	-0.15
glycerol	-0.799	-0.25
cholesterol	-0.376	-1.077
AJ	-0.373	-0.281
Bibs02	0.491	0.212
Bibs02c	0.109	-0.291
BL6	-0.324	-0.535
BL6a	-0.696	-1.472
BXD01	-0.852	-1.207
BXD010	-0.156	-0.783
BXD011	-0.188	-1.413
BXD03	-1.092	-0.391
BXD04	-0.503	-0.738
BXD05	-0.666	-1.6
BXD06	-0.854	-0.395
BXD07	-0.255	-0.873
BXD08	-0.708	-0.574
BXD09	-0.85	-0.432
CAST	-0.654	-0.107
CCcont	0.553	-0.83
DS01	0.036	-0.149
DS02	0.025	-0.829
DS04	0.044	0.537
DS0c	0.409	0.024
GP01	0.381	0.044
GP02	0.828	1.157
GP0c	-0.726	-0.5
NOD	-0.187	-0.168
NZO	0.023	-0.184
PWK	-0.509	0.401
H37Rv_KO_CtpC	-0.845	-0.464
H37Rv_KO_CtpD	0.934	0.558
H37Rv_KO_Rv1272	-2.361	-2.501
H37Rv_KO_SugABC	-1.757	-2.054
H37Rv_KO_MbtN	-1.421	0.099
Trans05	-0.187	-1.565
macrophage_unactivated	-1.884	-0.275
IL1	0.252	-0.801
Rapamycin	-0.181	-0.384
Tcell	-0.606	-0.31
GMCSF	-0.269	-1.04
IFNab	-0.308	0.085
IFNg	-0.208	-1.128
IFNg_GMCSF1	-0.503	0.54
Rv1432_day32	1.802	0.974
Rv1565c_day32	0.697	1.085
secA2_input	-0.183	1.572
delta_Rv3594	-0.375	-0.74
delta_Rv3717	-0.852	-1.252
delta_Rv3811	-1.689	-0.962
delta_Rv0954	-0.673	-0.636
PonA1	0.143	0.564
EccD1_KO	1.095	0.151
EspI_KO	0.744	0.565
PE35_KO	-0.405	-0.023
PPE68_KO	-0.893	0.928
glycerol2	1.562	0.93
lignocerate	2.115	0.066
oleate	-0.425	0.584
phosphatidylcholine	1.562	0.959
acetate	1.637	2.482
glucAc	1.823	1.134
Rv0950ko	0.781	0.455
Rv1096ko	0.241	0.869
Rv3684ko	0.848	0.354
delta_otsA_trehalose	0.897	0.372