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 Rv0572c/-

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

	Rv2892c/PPE45	Rv0572c/-
Fe_supp_jason_reseq	-0.267	-0.704
low_pH_jason_reseq	-0.482	-0.642
NO_jason_reseq	-0.192	-0.113
B6_jason_reseq	-0.296	-0.323
MHCII_jason_reseq	0.057	-0.164
Isoniazid02	0.501	-0.442
Rifampicin4	0.644	0.195
Ethambutol3	0.241	0.112
Meropenem3	0.478	-0.071
Vancomycin16	0.592	0.082
Rv2680_day32	0.499	-0.024
H37Rv_KO_MarP	-0.277	-0.349
hypoxia_3wks	0.73	0.02
hypoxia_6wks	0.94	0.52
glycerol	-0.506	0.786
cholesterol	-0.862	0.303
AJ	0.182	-0.501
Bibs02	0.221	1.257
Bibs02c	-0.186	0.668
BL6	0.487	0.552
BL6a	0.42	0.402
BXD01	0.656	-0.145
BXD010	0.4	0.242
BXD011	0.248	0.82
BXD03	0.348	0.888
BXD04	0.005	0.015
BXD05	0.253	0.184
BXD06	0.672	0.319
BXD07	0.551	0.434
BXD08	0.863	0.233
BXD09	0.674	0.017
CAST	0.01	0.047
CCcont	0.129	0.799
DS01	0.157	-0.284
DS02	-0.246	-0.08
DS04	1.483	0.055
DS0c	0.431	-0.036
GP01	0.387	0.362
GP02	0.964	2.156
GP0c	0.263	0.117
NOD	0.314	0.063
NZO	-0.15	0.032
PWK	-0.502	0.047
H37Rv_KO_CtpC	-0.199	1.011
H37Rv_KO_CtpD	0.351	0.638
H37Rv_KO_Rv1272	0.386	0.674
H37Rv_KO_SugABC	0.38	0.184
H37Rv_KO_MbtN	-0.27	-0.143
Trans05	0.282	0.783
macrophage_unactivated	0.092	0.338
IL1	0.039	-0.255
Rapamycin	-0.147	-0.071
Tcell	0.124	-0.046
GMCSF	-0.011	-0.074
IFNab	-0.266	-0.348
IFNg	0.166	-0.216
IFNg_GMCSF1	-0.317	-0.27
Rv1432_day32	-0.613	-0.229
Rv1565c_day32	0.659	0.662
secA2_input	0.02	0.008
delta_Rv3594	0.0	-0.184
delta_Rv3717	-0.322	-0.034
delta_Rv3811	-0.595	0.039
delta_Rv0954	0.155	-0.421
PonA1	-0.182	-0.517
EccD1_KO	0.71	-0.056
EspI_KO	0.63	0.482
PE35_KO	-0.038	-0.23
PPE68_KO	0.102	-0.237
glycerol2	0.509	0.902
lignocerate	0.349	1.179
oleate	0.885	0.103
phosphatidylcholine	0.798	0.852
acetate	-0.776	0.071
glucAc	-0.792	0.395
Rv0950ko	1.2	0.063
Rv1096ko	1.14	0.763
Rv3684ko	0.495	0.331
delta_otsA_trehalose	2.157	2.429