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 Rv2774c/-:

update plot	correlation	link to info on gene
Rv2570/-	(cc=0.5434)	info on Rv2570/-
Rv2806/-	(cc=0.4999)	info on Rv2806/-
Rv3178/-	(cc=0.4979)	info on Rv3178/-
Rv0403c/mmpS1	(cc=0.4759)	info on Rv0403c/mmpS1
Rv2530c/vapC39	(cc=0.4648)	info on Rv2530c/vapC39
Rv2884/-	(cc=0.4581)	info on Rv2884/-
Rv1949c/-	(cc=0.4545)	info on Rv1949c/-
Rv2435c/-	(cc=0.4524)	info on Rv2435c/-
Rv3702c/-	(cc=0.4515)	info on Rv3702c/-
Rv3110/moaB1	(cc=0.4479)	info on Rv3110/moaB1

Correlation of Rv2774c/- with Rv2435c/-

Normalized LFCs for Rv2774c/-:
(description and provenance of datasets)

	Rv2774c/-	Rv2435c/-
Fe_supp_jason_reseq	0.766	-0.523
low_pH_jason_reseq	0.303	0.371
NO_jason_reseq	-0.459	-0.357
B6_jason_reseq	-0.978	-0.421
MHCII_jason_reseq	-1.194	0.088
Isoniazid02	-0.506	0.901
Rifampicin4	-0.328	0.07
Ethambutol3	-0.198	-0.063
Meropenem3	-0.231	0.284
Vancomycin16	-0.138	0.512
Rv2680_day32	-0.854	-0.527
H37Rv_KO_MarP	-0.5	0.035
hypoxia_3wks	1.168	0.355
hypoxia_6wks	0.05	0.217
glycerol	-1.565	-0.66
cholesterol	0.187	-0.142
AJ	0.324	0.795
Bibs02	-0.216	0.111
Bibs02c	-1.734	0.095
BL6	-0.97	-0.235
BL6a	0.049	0.06
BXD01	0.379	0.518
BXD010	-0.17	0.058
BXD011	0.54	0.719
BXD03	1.146	0.233
BXD04	-1.169	0.98
BXD05	0.787	0.446
BXD06	-0.122	0.457
BXD07	1.07	0.202
BXD08	-0.214	0.47
BXD09	-0.676	0.645
CAST	0.028	0.486
CCcont	-1.082	-0.457
DS01	0.666	0.212
DS02	1.177	-0.25
DS04	-0.202	-0.634
DS0c	-1.131	-0.035
GP01	1.716	0.13
GP02	1.025	0.339
GP0c	1.947	0.04
NOD	-0.638	0.233
NZO	0.708	0.471
PWK	-0.024	0.512
H37Rv_KO_CtpC	0.904	0.917
H37Rv_KO_CtpD	0.308	0.715
H37Rv_KO_Rv1272	1.625	1.096
H37Rv_KO_SugABC	-0.401	0.404
H37Rv_KO_MbtN	1.233	0.364
Trans05	1.885	0.947
macrophage_unactivated	-0.843	0.584
IL1	0.623	0.0
Rapamycin	-1.436	-0.654
Tcell	0.329	-0.065
GMCSF	-1.708	0.053
IFNab	2.279	0.175
IFNg	-2.111	-0.388
IFNg_GMCSF1	0.264	-0.063
Rv1432_day32	-0.554	0.386
Rv1565c_day32	-1.538	0.308
secA2_input	-0.991	-1.39
delta_Rv3594	1.144	0.451
delta_Rv3717	0.624	0.028
delta_Rv3811	0.697	0.518
delta_Rv0954	1.485	-0.209
PonA1	0.913	-0.335
EccD1_KO	0.378	-0.138
EspI_KO	0.938	-0.12
PE35_KO	0.79	0.726
PPE68_KO	1.405	1.017
glycerol2	0.171	-0.369
lignocerate	-1.198	-0.776
oleate	0.379	0.201
phosphatidylcholine	-0.15	-0.032
acetate	-2.095	-0.652
glucAc	-3.37	-1.378
Rv0950ko	0.202	0.145
Rv1096ko	-0.856	-0.151
Rv3684ko	0.147	-0.511
delta_otsA_trehalose	-0.536	0.591