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 Rv0589/mce2A

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

	Rv2892c/PPE45	Rv0589/mce2A
Fe_supp_jason_reseq	-0.267	-0.508
low_pH_jason_reseq	-0.482	0.44
NO_jason_reseq	-0.192	-0.683
B6_jason_reseq	-0.296	-0.019
MHCII_jason_reseq	0.057	-0.234
Isoniazid02	0.501	0.498
Rifampicin4	0.644	-0.111
Ethambutol3	0.241	-0.154
Meropenem3	0.478	0.117
Vancomycin16	0.592	0.597
Rv2680_day32	0.499	0.433
H37Rv_KO_MarP	-0.277	0.69
hypoxia_3wks	0.73	0.427
hypoxia_6wks	0.94	-0.342
glycerol	-0.506	-0.06
cholesterol	-0.862	0.141
AJ	0.182	-0.034
Bibs02	0.221	0.384
Bibs02c	-0.186	0.946
BL6	0.487	0.879
BL6a	0.42	0.392
BXD01	0.656	-0.226
BXD010	0.4	-0.179
BXD011	0.248	0.252
BXD03	0.348	0.421
BXD04	0.005	-0.348
BXD05	0.253	-0.354
BXD06	0.672	0.296
BXD07	0.551	0.04
BXD08	0.863	0.129
BXD09	0.674	0.261
CAST	0.01	0.37
CCcont	0.129	0.24
DS01	0.157	0.909
DS02	-0.246	-0.199
DS04	1.483	1.348
DS0c	0.431	0.211
GP01	0.387	0.409
GP02	0.964	0.726
GP0c	0.263	0.091
NOD	0.314	0.498
NZO	-0.15	0.442
PWK	-0.502	-0.479
H37Rv_KO_CtpC	-0.199	0.54
H37Rv_KO_CtpD	0.351	0.367
H37Rv_KO_Rv1272	0.386	0.244
H37Rv_KO_SugABC	0.38	-0.398
H37Rv_KO_MbtN	-0.27	0.981
Trans05	0.282	0.056
macrophage_unactivated	0.092	-0.363
IL1	0.039	-0.341
Rapamycin	-0.147	-0.543
Tcell	0.124	-0.577
GMCSF	-0.011	-0.578
IFNab	-0.266	0.112
IFNg	0.166	0.192
IFNg_GMCSF1	-0.317	0.116
Rv1432_day32	-0.613	0.0
Rv1565c_day32	0.659	0.479
secA2_input	0.02	-0.454
delta_Rv3594	0.0	-0.977
delta_Rv3717	-0.322	-0.266
delta_Rv3811	-0.595	-0.87
delta_Rv0954	0.155	-0.899
PonA1	-0.182	-1.217
EccD1_KO	0.71	1.01
EspI_KO	0.63	0.836
PE35_KO	-0.038	0.105
PPE68_KO	0.102	0.0
glycerol2	0.509	0.619
lignocerate	0.349	0.587
oleate	0.885	0.417
phosphatidylcholine	0.798	0.702
acetate	-0.776	0.452
glucAc	-0.792	0.415
Rv0950ko	1.2	1.402
Rv1096ko	1.14	0.896
Rv3684ko	0.495	0.802
delta_otsA_trehalose	2.157	0.965