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 Rv3017c/esxQ

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

	Rv2042c/-	Rv3017c/esxQ
Fe_supp_jason_reseq	0.688	-0.273
low_pH_jason_reseq	0.137	-0.157
NO_jason_reseq	-0.055	0.465
B6_jason_reseq	-0.072	-0.203
MHCII_jason_reseq	0.315	0.223
Isoniazid02	0.02	1.099
Rifampicin4	0.384	0.108
Ethambutol3	2.783	1.217
Meropenem3	0.063	0.268
Vancomycin16	0.313	0.114
Rv2680_day32	0.0	-0.576
H37Rv_KO_MarP	0.272	0.785
hypoxia_3wks	0.064	0.331
hypoxia_6wks	-0.351	0.01
glycerol	0.942	0.262
cholesterol	0.589	0.122
AJ	1.044	-0.128
Bibs02	1.056	0.801
Bibs02c	0.831	0.54
BL6	0.211	-0.617
BL6a	-0.053	0.631
BXD01	-0.283	-0.138
BXD010	-0.629	-0.33
BXD011	-0.626	0.291
BXD03	-1.535	-0.349
BXD04	0.078	0.272
BXD05	1.035	0.396
BXD06	-0.269	-0.305
BXD07	-0.112	-0.232
BXD08	0.391	0.318
BXD09	-0.018	0.009
CAST	0.362	0.242
CCcont	-0.898	-0.915
DS01	0.178	0.84
DS02	-0.147	0.485
DS04	-0.391	-0.121
DS0c	0.528	0.454
GP01	-0.053	-0.514
GP02	0.277	0.913
GP0c	-0.22	-0.291
NOD	0.661	1.198
NZO	0.485	0.117
PWK	0.374	0.045
H37Rv_KO_CtpC	0.361	1.144
H37Rv_KO_CtpD	0.806	-0.248
H37Rv_KO_Rv1272	0.018	0.636
H37Rv_KO_SugABC	-1.488	-0.826
H37Rv_KO_MbtN	0.283	1.13
Trans05	0.161	1.318
macrophage_unactivated	1.348	0.398
IL1	0.353	-0.033
Rapamycin	0.703	0.7
Tcell	0.534	-0.375
GMCSF	0.771	-0.098
IFNab	0.29	-0.399
IFNg	0.834	-0.657
IFNg_GMCSF1	1.225	0.773
Rv1432_day32	-0.703	0.027
Rv1565c_day32	0.531	0.242
secA2_input	-0.163	-0.167
delta_Rv3594	1.234	-0.076
delta_Rv3717	1.377	-0.242
delta_Rv3811	1.382	-0.15
delta_Rv0954	-0.074	-1.138
PonA1	0.447	-1.031
EccD1_KO	1.154	-0.171
EspI_KO	2.116	1.66
PE35_KO	1.896	0.82
PPE68_KO	2.56	0.774
glycerol2	0.073	-0.422
lignocerate	-0.829	-0.58
oleate	0.36	-0.058
phosphatidylcholine	-0.409	-0.057
acetate	-1.24	-1.647
glucAc	-1.571	-1.625
Rv0950ko	1.339	0.473
Rv1096ko	0.0	-0.44
Rv3684ko	0.318	-0.609
delta_otsA_trehalose	-1.136	0.555