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 Rv2042c/-:

update plot	correlation	link to info on gene
Rv2270/lppN	(cc=0.5706)	info on Rv2270/lppN
Rv1975/-	(cc=0.5413)	info on Rv1975/-
Rv2296/-	(cc=0.5277)	info on Rv2296/-
Rv1064c/lpqV	(cc=0.5272)	info on Rv1064c/lpqV
Rv2087/-	(cc=0.515)	info on Rv2087/-
Rv2089c/pepE	(cc=0.5119)	info on Rv2089c/pepE
Rv3017c/esxQ	(cc=0.5001)	info on Rv3017c/esxQ
Rv3189/-	(cc=0.4847)	info on Rv3189/-
Rv0053/rpsF	(cc=0.4828)	info on Rv0053/rpsF
Rv2273/-	(cc=0.4597)	info on Rv2273/-

Correlation of Rv2042c/- with Rv3189/-

Normalized LFCs for Rv2042c/-:
(description and provenance of datasets)

	Rv2042c/-	Rv3189/-
Fe_supp_jason_reseq	0.688	0.772
low_pH_jason_reseq	0.137	-0.999
NO_jason_reseq	-0.055	-0.478
B6_jason_reseq	-0.072	0.781
MHCII_jason_reseq	0.315	0.581
Isoniazid02	0.02	-0.464
Rifampicin4	0.384	0.054
Ethambutol3	2.783	-0.096
Meropenem3	0.063	0.024
Vancomycin16	0.313	-0.027
Rv2680_day32	0.0	-0.389
H37Rv_KO_MarP	0.272	0.047
hypoxia_3wks	0.064	0.044
hypoxia_6wks	-0.351	-0.023
glycerol	0.942	-0.503
cholesterol	0.589	-0.052
AJ	1.044	0.227
Bibs02	1.056	0.468
Bibs02c	0.831	0.067
BL6	0.211	0.155
BL6a	-0.053	0.056
BXD01	-0.283	-0.562
BXD010	-0.629	0.212
BXD011	-0.626	-0.076
BXD03	-1.535	-0.958
BXD04	0.078	0.14
BXD05	1.035	0.084
BXD06	-0.269	0.279
BXD07	-0.112	0.176
BXD08	0.391	-0.505
BXD09	-0.018	-0.027
CAST	0.362	0.606
CCcont	-0.898	-0.084
DS01	0.178	0.406
DS02	-0.147	1.09
DS04	-0.391	0.173
DS0c	0.528	0.33
GP01	-0.053	-0.436
GP02	0.277	0.244
GP0c	-0.22	-1.256
NOD	0.661	0.511
NZO	0.485	0.184
PWK	0.374	0.05
H37Rv_KO_CtpC	0.361	-0.125
H37Rv_KO_CtpD	0.806	0.511
H37Rv_KO_Rv1272	0.018	-0.028
H37Rv_KO_SugABC	-1.488	-2.002
H37Rv_KO_MbtN	0.283	-0.939
Trans05	0.161	0.477
macrophage_unactivated	1.348	0.013
IL1	0.353	0.679
Rapamycin	0.703	0.657
Tcell	0.534	-0.632
GMCSF	0.771	0.314
IFNab	0.29	0.583
IFNg	0.834	0.345
IFNg_GMCSF1	1.225	0.663
Rv1432_day32	-0.703	0.733
Rv1565c_day32	0.531	0.256
secA2_input	-0.163	0.111
delta_Rv3594	1.234	0.941
delta_Rv3717	1.377	0.159
delta_Rv3811	1.382	0.358
delta_Rv0954	-0.074	0.388
PonA1	0.447	1.267
EccD1_KO	1.154	1.592
EspI_KO	2.116	1.494
PE35_KO	1.896	1.205
PPE68_KO	2.56	1.142
glycerol2	0.073	-0.914
lignocerate	-0.829	-0.609
oleate	0.36	-0.882
phosphatidylcholine	-0.409	-0.902
acetate	-1.24	-0.763
glucAc	-1.571	-0.317
Rv0950ko	1.339	-0.018
Rv1096ko	0.0	-0.217
Rv3684ko	0.318	-1.022
delta_otsA_trehalose	-1.136	0.337