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 Rv1279/-:

update plot	correlation	link to info on gene
Rv2285/-	(cc=0.5662)	info on Rv2285/-
Rv2089c/pepE	(cc=0.5395)	info on Rv2089c/pepE
Rv1104/-	(cc=0.5362)	info on Rv1104/-
Rv1935c/echA13	(cc=0.5151)	info on Rv1935c/echA13
Rv2319c/-	(cc=0.5132)	info on Rv2319c/-
Rv2913c/-	(cc=0.513)	info on Rv2913c/-
Rv0962c/lprP	(cc=0.5093)	info on Rv0962c/lprP
Rv2515c/-	(cc=0.4948)	info on Rv2515c/-
Rv0177/-	(cc=0.4943)	info on Rv0177/-
Rv2629/-	(cc=0.4875)	info on Rv2629/-

Correlation of Rv1279/- with Rv2319c/-

Normalized LFCs for Rv1279/-:
(description and provenance of datasets)

	Rv1279/-	Rv2319c/-
Fe_supp_jason_reseq	0.508	-0.251
low_pH_jason_reseq	0.13	-1.128
NO_jason_reseq	0.399	0.055
B6_jason_reseq	0.578	1.133
MHCII_jason_reseq	0.125	0.934
Isoniazid02	0.451	0.405
Rifampicin4	0.065	0.753
Ethambutol3	0.85	0.103
Meropenem3	2.217	1.372
Vancomycin16	0.098	0.639
Rv2680_day32	0.171	1.133
H37Rv_KO_MarP	-0.223	0.281
hypoxia_3wks	0.443	0.12
hypoxia_6wks	0.37	-0.449
glycerol	-0.884	-0.642
cholesterol	-0.325	-0.768
AJ	-0.212	0.267
Bibs02	0.506	-0.97
Bibs02c	-0.541	-0.109
BL6	-0.008	-0.106
BL6a	-0.349	0.136
BXD01	-0.326	-0.31
BXD010	-0.035	-0.48
BXD011	-0.224	-0.209
BXD03	-0.114	-0.129
BXD04	-0.42	-0.233
BXD05	0.293	-0.129
BXD06	0.0	0.027
BXD07	0.295	0.146
BXD08	-0.299	0.066
BXD09	-0.118	-0.282
CAST	0.092	-0.964
CCcont	-0.919	-0.718
DS01	-0.115	-0.719
DS02	-0.199	-0.358
DS04	-0.42	-0.02
DS0c	-0.949	-1.079
GP01	0.389	1.521
GP02	0.542	0.35
GP0c	0.233	0.196
NOD	-0.763	0.6
NZO	0.532	-0.328
PWK	0.141	-0.735
H37Rv_KO_CtpC	0.095	0.86
H37Rv_KO_CtpD	-1.052	-0.456
H37Rv_KO_Rv1272	-0.341	-0.135
H37Rv_KO_SugABC	0.199	0.677
H37Rv_KO_MbtN	-0.888	-0.122
Trans05	0.313	-0.328
macrophage_unactivated	-0.057	-0.518
IL1	-0.219	0.394
Rapamycin	0.055	-0.246
Tcell	-0.463	-0.593
GMCSF	0.14	0.708
IFNab	-0.054	-0.242
IFNg	0.476	0.393
IFNg_GMCSF1	0.085	0.0
Rv1432_day32	-0.076	-0.185
Rv1565c_day32	0.711	0.509
secA2_input	0.0	0.157
delta_Rv3594	0.229	1.193
delta_Rv3717	1.022	0.725
delta_Rv3811	0.955	1.274
delta_Rv0954	0.425	0.262
PonA1	0.314	-0.349
EccD1_KO	0.773	0.26
EspI_KO	0.813	-0.299
PE35_KO	0.761	0.449
PPE68_KO	0.953	0.192
glycerol2	-0.406	-1.092
lignocerate	-0.712	-1.038
oleate	0.045	0.072
phosphatidylcholine	-0.602	-0.548
acetate	-0.372	-1.124
glucAc	-1.103	-1.934
Rv0950ko	-0.473	0.905
Rv1096ko	0.332	1.27
Rv3684ko	0.498	0.612
delta_otsA_trehalose	-0.57	0.154