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 Rv3304/-:

update plot	correlation	link to info on gene
Rv2645/-	(cc=0.4444)	info on Rv2645/-
Rv3777/-	(cc=0.4319)	info on Rv3777/-
Rv3463/-	(cc=0.4139)	info on Rv3463/-
Rv2334/cysK1	(cc=0.3777)	info on Rv2334/cysK1
Rv0302/-	(cc=0.3773)	info on Rv0302/-
Rv2232/ptkA	(cc=0.3741)	info on Rv2232/ptkA
Rv2571c/-	(cc=0.3738)	info on Rv2571c/-
Rv0695/-	(cc=0.3659)	info on Rv0695/-
Rv1033c/trcR	(cc=0.3617)	info on Rv1033c/trcR
Rv0927c/-	(cc=0.3591)	info on Rv0927c/-

Correlation of Rv3304/- with Rv0927c/-

Normalized LFCs for Rv3304/-:
(description and provenance of datasets)

	Rv3304/-	Rv0927c/-
Fe_supp_jason_reseq	0.35	0.519
low_pH_jason_reseq	1.206	0.624
NO_jason_reseq	-1.137	2.006
B6_jason_reseq	-0.123	0.264
MHCII_jason_reseq	-0.026	0.547
Isoniazid02	0.982	0.505
Rifampicin4	-2.28	0.745
Ethambutol3	0.0	-0.022
Meropenem3	-0.636	2.216
Vancomycin16	-0.817	0.844
Rv2680_day32	0.131	0.215
H37Rv_KO_MarP	1.659	0.155
hypoxia_3wks	0.0	0.518
hypoxia_6wks	1.054	1.629
glycerol	0.651	1.246
cholesterol	-1.453	0.589
AJ	0.931	0.691
Bibs02	0.335	-0.032
Bibs02c	0.674	1.072
BL6	-0.725	0.961
BL6a	0.994	1.135
BXD01	0.057	0.825
BXD010	1.198	0.445
BXD011	-0.088	0.897
BXD03	0.392	-0.636
BXD04	0.027	-0.133
BXD05	-0.888	1.703
BXD06	0.058	0.203
BXD07	-0.095	0.424
BXD08	0.992	0.446
BXD09	0.334	0.753
CAST	-0.27	0.637
CCcont	0.274	0.663
DS01	1.519	1.102
DS02	0.477	1.232
DS04	0.0	1.715
DS0c	-0.049	0.013
GP01	-0.045	1.32
GP02	-1.117	-0.809
GP0c	-0.253	-0.232
NOD	-0.208	0.026
NZO	0.087	-0.48
PWK	-0.99	-0.149
H37Rv_KO_CtpC	-0.706	0.498
H37Rv_KO_CtpD	-1.199	-0.883
H37Rv_KO_Rv1272	-0.477	0.831
H37Rv_KO_SugABC	0.064	1.148
H37Rv_KO_MbtN	-1.23	-1.677
Trans05	-0.976	0.12
macrophage_unactivated	-0.496	-0.429
IL1	-1.317	-0.626
Rapamycin	-2.133	-0.196
Tcell	-0.668	0.71
GMCSF	-1.489	-0.602
IFNab	0.369	-0.97
IFNg	-2.143	-0.144
IFNg_GMCSF1	-1.395	-1.401
Rv1432_day32	-0.035	0.395
Rv1565c_day32	-1.085	0.065
secA2_input	0.186	1.03
delta_Rv3594	-1.265	-0.528
delta_Rv3717	-1.36	-1.92
delta_Rv3811	-1.692	-2.898
delta_Rv0954	-1.129	-1.118
PonA1	-0.41	-0.607
EccD1_KO	0.174	1.457
EspI_KO	0.299	1.018
PE35_KO	0.922	2.894
PPE68_KO	1.081	1.923
glycerol2	2.089	0.824
lignocerate	0.065	0.913
oleate	0.149	0.544
phosphatidylcholine	0.111	0.919
acetate	-2.59	0.108
glucAc	-1.61	0.608
Rv0950ko	0.874	-0.971
Rv1096ko	2.542	0.109
Rv3684ko	0.147	-0.337
delta_otsA_trehalose	0.065	-1.28