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 Rv0021c/-:

update plot	correlation	link to info on gene
Rv3762c/-	(cc=0.5238)	info on Rv3762c/-
Rv0478/deoC	(cc=0.5064)	info on Rv0478/deoC
Rv1604/impA	(cc=0.4979)	info on Rv1604/impA
Rv1207/folP2	(cc=0.4929)	info on Rv1207/folP2
Rv3174/-	(cc=0.4526)	info on Rv3174/-
Rv3151/nuoG	(cc=0.4481)	info on Rv3151/nuoG
Rv1579c/-	(cc=0.4439)	info on Rv1579c/-
Rv3523/ltp3	(cc=0.4369)	info on Rv3523/ltp3
Rv3409c/choD	(cc=0.4352)	info on Rv3409c/choD
Rv3566A/-	(cc=0.4301)	info on Rv3566A/-

Correlation of Rv0021c/- with Rv0478/deoC

Normalized LFCs for Rv0021c/-:
(description and provenance of datasets)

	Rv0021c/-	Rv0478/deoC
Fe_supp_jason_reseq	-0.324	0.15
low_pH_jason_reseq	-0.072	-0.731
NO_jason_reseq	-0.131	-2.142
B6_jason_reseq	-0.04	1.559
MHCII_jason_reseq	0.061	-0.517
Isoniazid02	1.467	3.194
Rifampicin4	0.447	0.964
Ethambutol3	1.045	3.822
Meropenem3	1.29	-0.371
Vancomycin16	0.456	-0.669
Rv2680_day32	0.103	0.062
H37Rv_KO_MarP	0.315	0.535
hypoxia_3wks	0.275	-0.447
hypoxia_6wks	0.71	0.246
glycerol	0.674	0.641
cholesterol	1.363	0.423
AJ	0.306	-0.75
Bibs02	0.506	-0.935
Bibs02c	0.681	-0.629
BL6	0.823	1.041
BL6a	0.679	0.99
BXD01	0.92	1.893
BXD010	0.587	1.964
BXD011	0.37	1.974
BXD03	0.584	1.121
BXD04	1.742	1.2
BXD05	0.876	1.063
BXD06	0.55	1.782
BXD07	0.676	1.264
BXD08	0.9	2.159
BXD09	0.691	1.298
CAST	-0.082	-1.555
CCcont	0.592	0.807
DS01	0.601	0.116
DS02	0.947	-1.468
DS04	0.022	-0.888
DS0c	0.354	1.106
GP01	-0.219	0.041
GP02	0.071	0.398
GP0c	0.467	0.958
NOD	-0.386	-2.278
NZO	-0.171	-0.812
PWK	-0.07	-2.269
H37Rv_KO_CtpC	-0.181	0.76
H37Rv_KO_CtpD	1.0	1.284
H37Rv_KO_Rv1272	0.12	0.047
H37Rv_KO_SugABC	0.817	-2.057
H37Rv_KO_MbtN	-0.568	-1.459
Trans05	0.847	-0.947
macrophage_unactivated	0.161	0.3
IL1	0.113	-0.836
Rapamycin	0.249	0.292
Tcell	0.365	-0.567
GMCSF	0.539	0.219
IFNab	0.39	0.81
IFNg	0.086	1.395
IFNg_GMCSF1	0.481	0.123
Rv1432_day32	0.516	0.675
Rv1565c_day32	-0.239	-0.191
secA2_input	0.297	1.068
delta_Rv3594	-0.587	-0.505
delta_Rv3717	-0.024	-0.281
delta_Rv3811	-0.116	-2.55
delta_Rv0954	0.296	-1.313
PonA1	0.029	-3.114
EccD1_KO	-0.161	-1.059
EspI_KO	-0.776	-2.647
PE35_KO	-0.77	-0.758
PPE68_KO	-0.685	-1.533
glycerol2	0.712	-0.796
lignocerate	0.528	0.062
oleate	0.615	-0.532
phosphatidylcholine	0.445	-0.724
acetate	0.309	0.697
glucAc	0.39	0.321
Rv0950ko	0.642	0.353
Rv1096ko	0.163	2.147
Rv3684ko	0.982	0.213
delta_otsA_trehalose	0.199	-1.884