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 Rv2892c/PPE45:

update plot	correlation	link to info on gene
Rv0551c/fadD8	(cc=0.5185)	info on Rv0551c/fadD8
Rv2191/-	(cc=0.4812)	info on Rv2191/-
Rv0855/far	(cc=0.4759)	info on Rv0855/far
Rv0941c/-	(cc=0.4615)	info on Rv0941c/-
Rv1513/-	(cc=0.4592)	info on Rv1513/-
Rv0572c/-	(cc=0.4528)	info on Rv0572c/-
Rv1966/mce3A	(cc=0.4464)	info on Rv1966/mce3A
Rv1861/-	(cc=0.444)	info on Rv1861/-
Rv0589/mce2A	(cc=0.4417)	info on Rv0589/mce2A
Rv3378c/-	(cc=0.4331)	info on Rv3378c/-

Correlation of Rv2892c/PPE45 with Rv1861/-

Normalized LFCs for Rv2892c/PPE45:
(description and provenance of datasets)

	Rv2892c/PPE45	Rv1861/-
Fe_supp_jason_reseq	-0.267	-0.117
low_pH_jason_reseq	-0.482	-1.655
NO_jason_reseq	-0.192	0.428
B6_jason_reseq	-0.296	-1.122
MHCII_jason_reseq	0.057	-0.956
Isoniazid02	0.501	-0.723
Rifampicin4	0.644	-0.284
Ethambutol3	0.241	0.428
Meropenem3	0.478	1.029
Vancomycin16	0.592	-0.342
Rv2680_day32	0.499	0.683
H37Rv_KO_MarP	-0.277	-0.428
hypoxia_3wks	0.73	0.63
hypoxia_6wks	0.94	1.165
glycerol	-0.506	-2.422
cholesterol	-0.862	-0.936
AJ	0.182	0.155
Bibs02	0.221	0.057
Bibs02c	-0.186	-1.555
BL6	0.487	-0.072
BL6a	0.42	-0.35
BXD01	0.656	0.581
BXD010	0.4	0.628
BXD011	0.248	0.659
BXD03	0.348	0.255
BXD04	0.005	0.521
BXD05	0.253	-0.009
BXD06	0.672	0.903
BXD07	0.551	0.9
BXD08	0.863	0.989
BXD09	0.674	0.753
CAST	0.01	0.31
CCcont	0.129	-0.188
DS01	0.157	0.445
DS02	-0.246	-0.199
DS04	1.483	0.604
DS0c	0.431	0.696
GP01	0.387	0.859
GP02	0.964	1.048
GP0c	0.263	0.809
NOD	0.314	0.861
NZO	-0.15	0.334
PWK	-0.502	0.527
H37Rv_KO_CtpC	-0.199	1.449
H37Rv_KO_CtpD	0.351	1.112
H37Rv_KO_Rv1272	0.386	0.338
H37Rv_KO_SugABC	0.38	1.671
H37Rv_KO_MbtN	-0.27	0.74
Trans05	0.282	0.734
macrophage_unactivated	0.092	0.12
IL1	0.039	-0.617
Rapamycin	-0.147	0.0
Tcell	0.124	-0.192
GMCSF	-0.011	-0.396
IFNab	-0.266	-0.453
IFNg	0.166	-0.363
IFNg_GMCSF1	-0.317	-0.167
Rv1432_day32	-0.613	0.386
Rv1565c_day32	0.659	0.297
secA2_input	0.02	-0.194
delta_Rv3594	0.0	-0.11
delta_Rv3717	-0.322	-0.41
delta_Rv3811	-0.595	-0.556
delta_Rv0954	0.155	0.417
PonA1	-0.182	-0.129
EccD1_KO	0.71	-0.046
EspI_KO	0.63	0.22
PE35_KO	-0.038	-0.064
PPE68_KO	0.102	0.352
glycerol2	0.509	-0.149
lignocerate	0.349	-0.505
oleate	0.885	0.411
phosphatidylcholine	0.798	-0.101
acetate	-0.776	-0.427
glucAc	-0.792	-1.002
Rv0950ko	1.2	1.061
Rv1096ko	1.14	-0.196
Rv3684ko	0.495	-1.055
delta_otsA_trehalose	2.157	0.247