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 Rv0941c/-:

update plot	correlation	link to info on gene
Rv3521/-	(cc=0.5384)	info on Rv3521/-
Rv0779c/-	(cc=0.5133)	info on Rv0779c/-
Rv3265c/wbbL1	(cc=0.4732)	info on Rv3265c/wbbL1
Rv2892c/PPE45	(cc=0.4615)	info on Rv2892c/PPE45
Rv3144c/PPE52	(cc=0.4482)	info on Rv3144c/PPE52
Rv2971/-	(cc=0.4419)	info on Rv2971/-
Rv3831/-	(cc=0.4288)	info on Rv3831/-
Rv1735c/-	(cc=0.4243)	info on Rv1735c/-
Rv0765c/-	(cc=0.4096)	info on Rv0765c/-
Rv0578c/PE_PGRS7	(cc=0.4039)	info on Rv0578c/PE_PGRS7

Correlation of Rv0941c/- with Rv3831/-

Normalized LFCs for Rv0941c/-:
(description and provenance of datasets)

	Rv0941c/-	Rv3831/-
Fe_supp_jason_reseq	-0.985	-0.936
low_pH_jason_reseq	-0.522	-1.268
NO_jason_reseq	0.302	0.507
B6_jason_reseq	-0.074	-0.669
MHCII_jason_reseq	-0.103	-0.863
Isoniazid02	0.604	0.086
Rifampicin4	0.579	-0.073
Ethambutol3	0.759	0.218
Meropenem3	0.357	0.089
Vancomycin16	1.021	0.332
Rv2680_day32	-0.36	1.877
H37Rv_KO_MarP	0.426	0.879
hypoxia_3wks	0.327	-0.1
hypoxia_6wks	0.013	0.061
glycerol	0.527	-0.12
cholesterol	0.182	0.415
AJ	-0.057	-0.185
Bibs02	0.936	0.128
Bibs02c	-0.496	-0.74
BL6	0.184	0.555
BL6a	-0.1	0.349
BXD01	0.573	0.234
BXD010	0.679	1.308
BXD011	0.543	1.212
BXD03	0.116	0.415
BXD04	-0.248	0.627
BXD05	0.53	1.011
BXD06	0.327	0.838
BXD07	0.174	0.472
BXD08	0.172	0.706
BXD09	0.107	0.828
CAST	-0.277	0.052
CCcont	0.065	0.32
DS01	0.0	0.506
DS02	0.774	0.377
DS04	0.878	-0.476
DS0c	0.262	0.512
GP01	0.175	0.651
GP02	0.951	1.442
GP0c	0.503	1.265
NOD	0.231	0.425
NZO	0.409	0.925
PWK	-0.465	-0.165
H37Rv_KO_CtpC	0.108	-0.071
H37Rv_KO_CtpD	0.898	1.321
H37Rv_KO_Rv1272	1.642	0.843
H37Rv_KO_SugABC	0.765	0.417
H37Rv_KO_MbtN	-0.947	-0.891
Trans05	1.07	0.61
macrophage_unactivated	-0.051	-0.022
IL1	-0.047	-0.101
Rapamycin	-0.359	0.298
Tcell	0.684	0.049
GMCSF	0.536	0.372
IFNab	-0.354	-0.045
IFNg	0.39	0.358
IFNg_GMCSF1	-0.182	0.226
Rv1432_day32	-0.262	0.151
Rv1565c_day32	0.889	0.886
secA2_input	0.672	0.595
delta_Rv3594	0.366	-0.234
delta_Rv3717	0.545	-0.369
delta_Rv3811	0.626	0.037
delta_Rv0954	0.559	0.039
PonA1	0.089	0.641
EccD1_KO	0.335	-0.138
EspI_KO	0.468	0.197
PE35_KO	0.709	0.172
PPE68_KO	0.736	-0.061
glycerol2	-0.006	0.101
lignocerate	-0.16	0.026
oleate	-0.186	0.03
phosphatidylcholine	0.069	0.196
acetate	-0.703	-0.482
glucAc	-0.533	-0.166
Rv0950ko	1.269	0.528
Rv1096ko	1.004	0.314
Rv3684ko	0.907	-0.039
delta_otsA_trehalose	0.811	0.068