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 Rv0478/deoC:

update plot	correlation	link to info on gene
Rv3174/-	(cc=0.6274)	info on Rv3174/-
Rv2970A/-	(cc=0.5969)	info on Rv2970A/-
Rv3660c/-	(cc=0.5656)	info on Rv3660c/-
Rv3523/ltp3	(cc=0.5111)	info on Rv3523/ltp3
Rv0021c/-	(cc=0.5064)	info on Rv0021c/-
Rv0086/hycQ	(cc=0.4737)	info on Rv0086/hycQ
Rv0070c/glyA2	(cc=0.468)	info on Rv0070c/glyA2
Rv2737A/-	(cc=0.4639)	info on Rv2737A/-
Rv3427c/-	(cc=0.4573)	info on Rv3427c/-
Rv3430c/-	(cc=0.4469)	info on Rv3430c/-

Correlation of Rv0478/deoC with Rv3174/-

Normalized LFCs for Rv0478/deoC:
(description and provenance of datasets)

	Rv0478/deoC	Rv3174/-
Fe_supp_jason_reseq	0.15	0.159
low_pH_jason_reseq	-0.731	0.99
NO_jason_reseq	-2.142	-1.454
B6_jason_reseq	1.559	-0.145
MHCII_jason_reseq	-0.517	0.243
Isoniazid02	3.194	4.617
Rifampicin4	0.964	0.49
Ethambutol3	3.822	4.904
Meropenem3	-0.371	-0.151
Vancomycin16	-0.669	0.125
Rv2680_day32	0.062	0.063
H37Rv_KO_MarP	0.535	0.317
hypoxia_3wks	-0.447	0.833
hypoxia_6wks	0.246	0.921
glycerol	0.641	0.083
cholesterol	0.423	-0.534
AJ	-0.75	-0.676
Bibs02	-0.935	0.331
Bibs02c	-0.629	0.906
BL6	1.041	1.413
BL6a	0.99	1.167
BXD01	1.893	1.092
BXD010	1.964	1.144
BXD011	1.974	0.44
BXD03	1.121	0.323
BXD04	1.2	0.592
BXD05	1.063	0.726
BXD06	1.782	0.786
BXD07	1.264	0.953
BXD08	2.159	1.063
BXD09	1.298	1.187
CAST	-1.555	0.157
CCcont	0.807	0.633
DS01	0.116	-0.358
DS02	-1.468	-0.095
DS04	-0.888	0.233
DS0c	1.106	-0.844
GP01	0.041	1.235
GP02	0.398	0.463
GP0c	0.958	1.627
NOD	-2.278	0.093
NZO	-0.812	-0.087
PWK	-2.269	-0.028
H37Rv_KO_CtpC	0.76	-0.845
H37Rv_KO_CtpD	1.284	1.342
H37Rv_KO_Rv1272	0.047	0.636
H37Rv_KO_SugABC	-2.057	-1.523
H37Rv_KO_MbtN	-1.459	-0.69
Trans05	-0.947	-0.096
macrophage_unactivated	0.3	0.514
IL1	-0.836	0.116
Rapamycin	0.292	0.39
Tcell	-0.567	0.971
GMCSF	0.219	0.552
IFNab	0.81	-0.082
IFNg	1.395	0.371
IFNg_GMCSF1	0.123	0.764
Rv1432_day32	0.675	0.3
Rv1565c_day32	-0.191	0.0
secA2_input	1.068	0.953
delta_Rv3594	-0.505	-0.679
delta_Rv3717	-0.281	-0.559
delta_Rv3811	-2.55	-0.416
delta_Rv0954	-1.313	0.018
PonA1	-3.114	-0.227
EccD1_KO	-1.059	-0.477
EspI_KO	-2.647	-0.365
PE35_KO	-0.758	0.0
PPE68_KO	-1.533	-0.518
glycerol2	-0.796	0.387
lignocerate	0.062	0.452
oleate	-0.532	0.991
phosphatidylcholine	-0.724	0.618
acetate	0.697	-0.066
glucAc	0.321	0.516
Rv0950ko	0.353	1.07
Rv1096ko	2.147	1.125
Rv3684ko	0.213	0.848
delta_otsA_trehalose	-1.884	0.859