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 Rv1035c/-:

update plot	correlation	link to info on gene
Rv0150c/-	(cc=0.5665)	info on Rv0150c/-
Rv2585c/-	(cc=0.5171)	info on Rv2585c/-
Rv1767/-	(cc=0.5114)	info on Rv1767/-
Rv1897c/-	(cc=0.4643)	info on Rv1897c/-
Rv1363c/-	(cc=0.4458)	info on Rv1363c/-
Rv2549c/vapC20	(cc=0.4271)	info on Rv2549c/vapC20
Rv1486c/-	(cc=0.422)	info on Rv1486c/-
Rv2806/-	(cc=0.4212)	info on Rv2806/-
Rv2231c/cobC	(cc=0.4195)	info on Rv2231c/cobC
Rv2129c/-	(cc=0.419)	info on Rv2129c/-

Correlation of Rv1035c/- with Rv2585c/-

Normalized LFCs for Rv1035c/-:
(description and provenance of datasets)

	Rv1035c/-	Rv2585c/-
Fe_supp_jason_reseq	0.264	0.229
low_pH_jason_reseq	-1.723	-1.047
NO_jason_reseq	-0.239	-0.798
B6_jason_reseq	-0.285	0.492
MHCII_jason_reseq	-0.151	0.212
Isoniazid02	-1.037	0.028
Rifampicin4	0.227	0.615
Ethambutol3	-0.755	0.924
Meropenem3	2.125	0.945
Vancomycin16	-0.488	0.127
Rv2680_day32	1.306	0.151
H37Rv_KO_MarP	-0.906	-0.913
hypoxia_3wks	-0.227	-0.514
hypoxia_6wks	-0.558	-0.505
glycerol	0.208	-0.092
cholesterol	1.439	0.846
AJ	1.321	0.519
Bibs02	2.307	0.616
Bibs02c	-2.12	0.358
BL6	-1.392	0.356
BL6a	0.91	0.505
BXD01	0.331	0.008
BXD010	1.179	0.812
BXD011	0.045	0.672
BXD03	1.519	0.487
BXD04	-0.299	0.17
BXD05	2.665	0.746
BXD06	0.483	0.481
BXD07	1.003	0.367
BXD08	0.811	0.305
BXD09	0.318	0.441
CAST	1.54	0.143
CCcont	-1.662	-0.558
DS01	-1.177	0.217
DS02	0.841	0.109
DS04	0.936	0.617
DS0c	-1.211	-0.099
GP01	-0.383	0.3
GP02	2.29	0.091
GP0c	0.134	-0.276
NOD	0.231	0.628
NZO	0.722	0.298
PWK	0.136	1.131
H37Rv_KO_CtpC	-0.186	-1.125
H37Rv_KO_CtpD	-1.409	-0.715
H37Rv_KO_Rv1272	1.477	-0.278
H37Rv_KO_SugABC	-0.754	0.296
H37Rv_KO_MbtN	0.608	0.583
Trans05	2.581	0.476
macrophage_unactivated	1.764	0.316
IL1	0.359	-0.374
Rapamycin	1.715	-0.246
Tcell	0.163	-0.632
GMCSF	3.369	1.17
IFNab	0.834	0.351
IFNg	0.198	0.436
IFNg_GMCSF1	2.02	1.144
Rv1432_day32	0.0	1.643
Rv1565c_day32	-0.082	0.433
secA2_input	-1.832	-0.719
delta_Rv3594	1.825	0.805
delta_Rv3717	2.901	0.75
delta_Rv3811	3.004	0.516
delta_Rv0954	1.919	0.185
PonA1	-2.086	0.369
EccD1_KO	-0.96	0.628
EspI_KO	-0.833	0.408
PE35_KO	-0.181	-0.327
PPE68_KO	-1.808	0.067
glycerol2	-1.115	-0.342
lignocerate	-1.801	-0.704
oleate	-0.474	0.312
phosphatidylcholine	-1.039	-0.668
acetate	-3.125	-0.432
glucAc	-3.31	-0.641
Rv0950ko	0.211	0.576
Rv1096ko	1.306	1.27
Rv3684ko	0.861	1.238
delta_otsA_trehalose	-0.77	-0.21