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 Rv1516c/-:

update plot	correlation	link to info on gene
Rv1528c/papA4	(cc=0.5471)	info on Rv1528c/papA4
Rv1453/-	(cc=0.4938)	info on Rv1453/-
Rv2915c/-	(cc=0.4726)	info on Rv2915c/-
Rv0899/ompA	(cc=0.4622)	info on Rv0899/ompA
Rv0802c/-	(cc=0.4612)	info on Rv0802c/-
Rv1542c/glbN	(cc=0.4583)	info on Rv1542c/glbN
Rv2331/-	(cc=0.4543)	info on Rv2331/-
Rv2681/-	(cc=0.4529)	info on Rv2681/-
Rv2432c/-	(cc=0.4464)	info on Rv2432c/-
Rv2328/PE23	(cc=0.4391)	info on Rv2328/PE23

Correlation of Rv1516c/- with Rv0802c/-

Normalized LFCs for Rv1516c/-:
(description and provenance of datasets)

	Rv1516c/-	Rv0802c/-
Fe_supp_jason_reseq	0.257	0.421
low_pH_jason_reseq	-1.027	-1.062
NO_jason_reseq	-0.601	-0.782
B6_jason_reseq	0.712	-0.233
MHCII_jason_reseq	1.498	-0.024
Isoniazid02	0.16	-0.429
Rifampicin4	0.043	0.539
Ethambutol3	0.259	-0.333
Meropenem3	0.956	0.921
Vancomycin16	0.085	-0.143
Rv2680_day32	-0.913	-0.627
H37Rv_KO_MarP	0.294	0.154
hypoxia_3wks	-0.116	-0.817
hypoxia_6wks	-0.152	0.232
glycerol	0.369	-1.788
cholesterol	-1.422	-0.356
AJ	-0.044	0.518
Bibs02	0.244	0.072
Bibs02c	0.75	0.582
BL6	-0.401	-0.475
BL6a	-0.057	0.344
BXD01	-0.383	0.458
BXD010	0.048	0.05
BXD011	0.376	-0.345
BXD03	0.448	0.365
BXD04	-0.073	0.979
BXD05	0.84	0.279
BXD06	0.109	-0.014
BXD07	0.339	0.477
BXD08	0.494	0.052
BXD09	-0.041	0.22
CAST	0.365	0.874
CCcont	-0.229	-0.03
DS01	0.648	0.287
DS02	-0.613	0.555
DS04	1.45	0.583
DS0c	1.026	1.079
GP01	-2.127	-0.649
GP02	-2.085	-1.636
GP0c	-2.068	-1.532
NOD	0.835	0.109
NZO	0.396	0.98
PWK	0.523	0.132
H37Rv_KO_CtpC	-0.031	-0.64
H37Rv_KO_CtpD	-0.037	-0.763
H37Rv_KO_Rv1272	-0.452	-0.556
H37Rv_KO_SugABC	-1.576	-0.405
H37Rv_KO_MbtN	-0.04	-0.843
Trans05	0.717	-1.461
macrophage_unactivated	0.035	0.565
IL1	-0.753	-0.409
Rapamycin	-0.74	0.144
Tcell	-0.658	0.228
GMCSF	0.227	-0.095
IFNab	-0.571	-0.145
IFNg	-0.54	-0.032
IFNg_GMCSF1	0.104	0.462
Rv1432_day32	-0.442	0.704
Rv1565c_day32	1.218	1.475
secA2_input	1.902	0.1
delta_Rv3594	-1.133	-1.042
delta_Rv3717	-0.669	-0.39
delta_Rv3811	-0.763	-0.641
delta_Rv0954	0.979	-1.353
PonA1	-0.08	-0.473
EccD1_KO	0.118	0.49
EspI_KO	0.491	1.05
PE35_KO	1.076	0.0
PPE68_KO	1.043	0.323
glycerol2	-0.154	0.154
lignocerate	0.677	0.359
oleate	0.0	-0.383
phosphatidylcholine	0.497	0.433
acetate	0.851	1.23
glucAc	0.662	0.145
Rv0950ko	-0.458	-0.681
Rv1096ko	-0.404	0.362
Rv3684ko	0.593	-0.21
delta_otsA_trehalose	1.161	0.0