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 Rv2089c/pepE

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

	Rv2042c/-	Rv2089c/pepE
Fe_supp_jason_reseq	0.688	0.813
low_pH_jason_reseq	0.137	-0.179
NO_jason_reseq	-0.055	0.622
B6_jason_reseq	-0.072	0.61
MHCII_jason_reseq	0.315	0.0
Isoniazid02	0.02	0.973
Rifampicin4	0.384	0.0
Ethambutol3	2.783	3.413
Meropenem3	0.063	2.671
Vancomycin16	0.313	0.796
Rv2680_day32	0.0	-0.471
H37Rv_KO_MarP	0.272	-0.785
hypoxia_3wks	0.064	0.136
hypoxia_6wks	-0.351	0.702
glycerol	0.942	-0.089
cholesterol	0.589	0.627
AJ	1.044	0.131
Bibs02	1.056	0.51
Bibs02c	0.831	0.784
BL6	0.211	0.589
BL6a	-0.053	-0.181
BXD01	-0.283	-1.104
BXD010	-0.629	-0.435
BXD011	-0.626	-1.578
BXD03	-1.535	-1.883
BXD04	0.078	-1.268
BXD05	1.035	-0.758
BXD06	-0.269	-1.269
BXD07	-0.112	-0.338
BXD08	0.391	-1.042
BXD09	-0.018	-0.863
CAST	0.362	0.162
CCcont	-0.898	-0.997
DS01	0.178	0.409
DS02	-0.147	-0.065
DS04	-0.391	-0.438
DS0c	0.528	0.506
GP01	-0.053	-0.44
GP02	0.277	-1.364
GP0c	-0.22	-1.19
NOD	0.661	0.576
NZO	0.485	0.37
PWK	0.374	0.388
H37Rv_KO_CtpC	0.361	-1.486
H37Rv_KO_CtpD	0.806	0.435
H37Rv_KO_Rv1272	0.018	-0.76
H37Rv_KO_SugABC	-1.488	0.588
H37Rv_KO_MbtN	0.283	-1.38
Trans05	0.161	-0.183
macrophage_unactivated	1.348	-0.641
IL1	0.353	-0.217
Rapamycin	0.703	-1.249
Tcell	0.534	-1.03
GMCSF	0.771	0.0
IFNab	0.29	-0.296
IFNg	0.834	-0.262
IFNg_GMCSF1	1.225	-0.553
Rv1432_day32	-0.703	-0.24
Rv1565c_day32	0.531	0.496
secA2_input	-0.163	1.188
delta_Rv3594	1.234	1.634
delta_Rv3717	1.377	0.594
delta_Rv3811	1.382	1.866
delta_Rv0954	-0.074	0.0
PonA1	0.447	0.728
EccD1_KO	1.154	0.51
EspI_KO	2.116	1.343
PE35_KO	1.896	0.621
PPE68_KO	2.56	1.731
glycerol2	0.073	-1.131
lignocerate	-0.829	-1.047
oleate	0.36	-0.872
phosphatidylcholine	-0.409	-0.798
acetate	-1.24	-0.487
glucAc	-1.571	-0.229
Rv0950ko	1.339	-0.347
Rv1096ko	0.0	-0.259
Rv3684ko	0.318	-0.282
delta_otsA_trehalose	-1.136	-1.358