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 Rv2884/-:

update plot	correlation	link to info on gene
Rv1073/-	(cc=0.4757)	info on Rv1073/-
Rv2881c/cdsA	(cc=0.4711)	info on Rv2881c/cdsA
Rv2819c/-	(cc=0.4686)	info on Rv2819c/-
Rv2774c/-	(cc=0.4581)	info on Rv2774c/-
Rv0760c/-	(cc=0.444)	info on Rv0760c/-
Rv2570/-	(cc=0.4419)	info on Rv2570/-
Rv2269c/-	(cc=0.4365)	info on Rv2269c/-
Rv1354c/-	(cc=0.4246)	info on Rv1354c/-
Rv2810c/-	(cc=0.4222)	info on Rv2810c/-
Rv2847c/cysG	(cc=0.4123)	info on Rv2847c/cysG

Correlation of Rv2884/- with Rv0760c/-

Normalized LFCs for Rv2884/-:
(description and provenance of datasets)

	Rv2884/-	Rv0760c/-
Fe_supp_jason_reseq	-0.466	-0.03
low_pH_jason_reseq	0.294	-0.228
NO_jason_reseq	-1.483	-0.2
B6_jason_reseq	0.101	-0.084
MHCII_jason_reseq	0.356	-0.074
Isoniazid02	0.796	0.058
Rifampicin4	-0.717	-0.625
Ethambutol3	0.393	-0.083
Meropenem3	-0.113	-0.315
Vancomycin16	-0.515	-0.18
Rv2680_day32	-0.151	0.614
H37Rv_KO_MarP	-0.666	-0.58
hypoxia_3wks	-0.319	1.029
hypoxia_6wks	-0.094	-0.378
glycerol	0.057	0.116
cholesterol	-0.684	-0.861
AJ	-0.682	0.341
Bibs02	0.229	0.172
Bibs02c	0.209	0.377
BL6	-0.859	1.024
BL6a	0.346	1.002
BXD01	0.248	0.706
BXD010	-0.531	1.072
BXD011	0.359	-0.31
BXD03	0.672	1.342
BXD04	-0.274	0.341
BXD05	-0.191	1.818
BXD06	-0.265	0.306
BXD07	-0.407	-0.055
BXD08	0.555	0.896
BXD09	0.375	0.711
CAST	0.169	1.885
CCcont	-0.043	0.318
DS01	0.067	-0.245
DS02	0.414	1.679
DS04	-0.523	0.475
DS0c	0.0	1.123
GP01	1.34	1.519
GP02	0.693	0.47
GP0c	0.639	0.0
NOD	0.532	0.877
NZO	-0.178	-0.039
PWK	0.279	0.895
H37Rv_KO_CtpC	-0.015	1.112
H37Rv_KO_CtpD	-1.213	-0.512
H37Rv_KO_Rv1272	2.348	1.987
H37Rv_KO_SugABC	0.107	1.157
H37Rv_KO_MbtN	1.712	0.942
Trans05	1.374	1.943
macrophage_unactivated	-0.363	1.222
IL1	0.0	0.89
Rapamycin	-0.353	0.485
Tcell	0.567	1.121
GMCSF	0.657	0.544
IFNab	0.254	0.323
IFNg	-0.885	1.563
IFNg_GMCSF1	-0.157	-0.968
Rv1432_day32	-0.222	1.915
Rv1565c_day32	-0.828	-0.766
secA2_input	-0.538	-0.131
delta_Rv3594	0.089	-0.187
delta_Rv3717	-0.24	0.693
delta_Rv3811	-0.516	-0.431
delta_Rv0954	-0.262	0.056
PonA1	-0.538	0.033
EccD1_KO	0.342	2.368
EspI_KO	0.684	0.764
PE35_KO	1.333	0.86
PPE68_KO	1.872	0.857
glycerol2	0.077	0.178
lignocerate	-0.267	-0.416
oleate	0.391	0.391
phosphatidylcholine	0.464	-0.154
acetate	-0.364	0.459
glucAc	-0.944	-0.89
Rv0950ko	-0.422	0.507
Rv1096ko	-0.685	0.636
Rv3684ko	-0.033	0.157
delta_otsA_trehalose	-0.427	-0.876