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 Rv2191/-:

update plot	correlation	link to info on gene
Rv0183/-	(cc=0.5368)	info on Rv0183/-
Rv2892c/PPE45	(cc=0.4812)	info on Rv2892c/PPE45
Rv0515/-	(cc=0.4747)	info on Rv0515/-
Rv0878c/PPE13	(cc=0.4624)	info on Rv0878c/PPE13
Rv0336/-	(cc=0.462)	info on Rv0336/-
Rv1743/pknE	(cc=0.4557)	info on Rv1743/pknE
Rv1546/-	(cc=0.4464)	info on Rv1546/-
Rv2994/-	(cc=0.4423)	info on Rv2994/-
Rv0458/-	(cc=0.4312)	info on Rv0458/-
Rv0877/-	(cc=0.4301)	info on Rv0877/-

Correlation of Rv2191/- with Rv1546/-

Normalized LFCs for Rv2191/-:
(description and provenance of datasets)

	Rv2191/-	Rv1546/-
Fe_supp_jason_reseq	0.0	-1.364
low_pH_jason_reseq	-0.979	0.452
NO_jason_reseq	0.318	1.315
B6_jason_reseq	0.376	0.499
MHCII_jason_reseq	0.0	0.705
Isoniazid02	0.437	0.208
Rifampicin4	0.712	0.923
Ethambutol3	0.311	-0.024
Meropenem3	0.694	1.798
Vancomycin16	0.576	0.297
Rv2680_day32	0.546	0.993
H37Rv_KO_MarP	-0.727	0.174
hypoxia_3wks	0.622	1.647
hypoxia_6wks	1.019	1.576
glycerol	-0.108	-0.999
cholesterol	0.435	0.0
AJ	-0.168	0.292
Bibs02	0.348	-0.013
Bibs02c	0.25	-0.456
BL6	0.597	0.777
BL6a	0.469	-0.432
BXD01	0.088	1.411
BXD010	0.158	-0.225
BXD011	0.713	0.766
BXD03	-0.054	-0.517
BXD04	0.549	1.519
BXD05	-0.103	0.631
BXD06	0.37	0.322
BXD07	0.218	0.986
BXD08	0.71	0.644
BXD09	0.333	1.048
CAST	0.422	0.823
CCcont	-0.423	-1.829
DS01	0.756	-0.31
DS02	0.181	-0.714
DS04	0.533	0.769
DS0c	0.476	0.449
GP01	0.499	1.724
GP02	0.694	0.682
GP0c	0.276	1.278
NOD	0.039	1.259
NZO	0.246	0.324
PWK	0.381	0.828
H37Rv_KO_CtpC	0.225	0.419
H37Rv_KO_CtpD	-0.268	-1.857
H37Rv_KO_Rv1272	0.618	1.129
H37Rv_KO_SugABC	0.324	-0.047
H37Rv_KO_MbtN	0.229	1.098
Trans05	0.515	1.966
macrophage_unactivated	-0.136	-0.319
IL1	0.225	0.231
Rapamycin	0.147	-1.068
Tcell	-0.202	0.254
GMCSF	0.156	-0.364
IFNab	-0.342	-1.119
IFNg	-0.032	-0.631
IFNg_GMCSF1	-0.522	0.28
Rv1432_day32	0.893	1.587
Rv1565c_day32	-0.081	0.873
secA2_input	0.607	0.734
delta_Rv3594	-0.281	-0.506
delta_Rv3717	-0.26	1.626
delta_Rv3811	-0.512	0.427
delta_Rv0954	-0.142	-0.187
PonA1	-0.015	-0.549
EccD1_KO	0.474	-0.135
EspI_KO	0.291	0.627
PE35_KO	-0.755	-0.715
PPE68_KO	-0.582	-0.531
glycerol2	0.185	0.3
lignocerate	0.387	-0.58
oleate	0.359	1.136
phosphatidylcholine	0.197	0.245
acetate	-0.066	-0.884
glucAc	0.227	-1.069
Rv0950ko	0.184	0.0
Rv1096ko	0.287	-0.075
Rv3684ko	0.255	1.264
delta_otsA_trehalose	1.379	0.431