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 Rv0962c/lprP

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

	Rv1279/-	Rv0962c/lprP
Fe_supp_jason_reseq	0.508	-0.287
low_pH_jason_reseq	0.13	-0.415
NO_jason_reseq	0.399	-0.627
B6_jason_reseq	0.578	0.751
MHCII_jason_reseq	0.125	0.417
Isoniazid02	0.451	-0.012
Rifampicin4	0.065	-0.271
Ethambutol3	0.85	0.123
Meropenem3	2.217	1.128
Vancomycin16	0.098	0.042
Rv2680_day32	0.171	0.903
H37Rv_KO_MarP	-0.223	-0.231
hypoxia_3wks	0.443	0.423
hypoxia_6wks	0.37	0.065
glycerol	-0.884	-1.078
cholesterol	-0.325	-0.866
AJ	-0.212	0.106
Bibs02	0.506	-0.416
Bibs02c	-0.541	-0.732
BL6	-0.008	0.3
BL6a	-0.349	-0.719
BXD01	-0.326	-0.281
BXD010	-0.035	-0.199
BXD011	-0.224	-0.19
BXD03	-0.114	-0.455
BXD04	-0.42	0.611
BXD05	0.293	0.313
BXD06	0.0	-0.006
BXD07	0.295	-0.185
BXD08	-0.299	-0.257
BXD09	-0.118	-0.24
CAST	0.092	-0.177
CCcont	-0.919	-0.612
DS01	-0.115	0.022
DS02	-0.199	0.156
DS04	-0.42	-0.149
DS0c	-0.949	-0.583
GP01	0.389	0.604
GP02	0.542	1.462
GP0c	0.233	1.069
NOD	-0.763	-0.348
NZO	0.532	0.277
PWK	0.141	0.412
H37Rv_KO_CtpC	0.095	0.131
H37Rv_KO_CtpD	-1.052	0.261
H37Rv_KO_Rv1272	-0.341	0.013
H37Rv_KO_SugABC	0.199	0.54
H37Rv_KO_MbtN	-0.888	-0.176
Trans05	0.313	0.74
macrophage_unactivated	-0.057	0.028
IL1	-0.219	-0.516
Rapamycin	0.055	-0.273
Tcell	-0.463	0.0
GMCSF	0.14	0.201
IFNab	-0.054	-0.411
IFNg	0.476	0.224
IFNg_GMCSF1	0.085	0.107
Rv1432_day32	-0.076	0.278
Rv1565c_day32	0.711	0.711
secA2_input	0.0	0.204
delta_Rv3594	0.229	0.217
delta_Rv3717	1.022	0.299
delta_Rv3811	0.955	-0.059
delta_Rv0954	0.425	-0.066
PonA1	0.314	0.012
EccD1_KO	0.773	0.701
EspI_KO	0.813	0.071
PE35_KO	0.761	0.169
PPE68_KO	0.953	-0.054
glycerol2	-0.406	-0.071
lignocerate	-0.712	-0.072
oleate	0.045	0.322
phosphatidylcholine	-0.602	0.08
acetate	-0.372	-0.073
glucAc	-1.103	-0.251
Rv0950ko	-0.473	-0.133
Rv1096ko	0.332	0.546
Rv3684ko	0.498	-0.118
delta_otsA_trehalose	-0.57	-0.108