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 Rv1707/-:

update plot	correlation	link to info on gene
Rv0231/fadE4	(cc=0.5246)	info on Rv0231/fadE4
Rv0268c/-	(cc=0.4532)	info on Rv0268c/-
Rv0588/yrbE2B	(cc=0.4475)	info on Rv0588/yrbE2B
Rv3011c/gatA	(cc=0.4356)	info on Rv3011c/gatA
Rv3437/-	(cc=0.431)	info on Rv3437/-
Rv0145/-	(cc=0.4145)	info on Rv0145/-
Rv0905/echA6	(cc=0.4125)	info on Rv0905/echA6
Rv3675/-	(cc=0.4109)	info on Rv3675/-
Rv3435c/-	(cc=0.4075)	info on Rv3435c/-
Rv2594c/ruvC	(cc=0.4058)	info on Rv2594c/ruvC

Correlation of Rv1707/- with Rv3011c/gatA

Normalized LFCs for Rv1707/-:
(description and provenance of datasets)

	Rv1707/-	Rv3011c/gatA
Fe_supp_jason_reseq	-0.251	-0.549
low_pH_jason_reseq	-0.564	-0.811
NO_jason_reseq	1.901	0.263
B6_jason_reseq	0.21	-0.538
MHCII_jason_reseq	0.458	-0.474
Isoniazid02	-0.096	-0.156
Rifampicin4	-2.166	-0.942
Ethambutol3	-1.131	-0.423
Meropenem3	-0.491	-0.266
Vancomycin16	-2.258	-0.589
Rv2680_day32	0.083	0.0
H37Rv_KO_MarP	0.068	0.631
hypoxia_3wks	-0.618	0.0
hypoxia_6wks	-1.62	0.0
glycerol	0.102	0.0
cholesterol	-0.959	0.0
AJ	1.298	0.0
Bibs02	0.279	0.0
Bibs02c	-0.103	0.0
BL6	-0.438	0.0
BL6a	0.29	0.0
BXD01	-0.284	0.0
BXD010	0.559	0.0
BXD011	0.498	0.0
BXD03	0.15	0.0
BXD04	-0.051	0.0
BXD05	0.339	0.0
BXD06	0.083	0.0
BXD07	0.287	0.0
BXD08	0.203	0.0
BXD09	0.441	0.0
CAST	0.574	0.0
CCcont	-0.371	0.0
DS01	-0.493	0.0
DS02	-1.007	0.0
DS04	-0.32	0.0
DS0c	-0.135	0.0
GP01	0.307	0.0
GP02	0.594	0.0
GP0c	0.076	0.0
NOD	0.28	0.0
NZO	0.655	0.0
PWK	0.988	0.0
H37Rv_KO_CtpC	-0.625	0.309
H37Rv_KO_CtpD	0.495	0.127
H37Rv_KO_Rv1272	0.13	0.269
H37Rv_KO_SugABC	-0.241	1.102
H37Rv_KO_MbtN	0.477	0.0
Trans05	-0.393	0.0
macrophage_unactivated	-0.877	0.0
IL1	0.288	0.0
Rapamycin	-0.911	0.0
Tcell	0.033	0.0
GMCSF	-0.333	0.0
IFNab	-0.783	0.0
IFNg	0.82	0.0
IFNg_GMCSF1	0.179	0.0
Rv1432_day32	-0.97	0.0
Rv1565c_day32	-0.141	-0.199
secA2_input	0.0	-0.412
delta_Rv3594	0.0	0.402
delta_Rv3717	-0.059	0.0
delta_Rv3811	-0.07	0.0
delta_Rv0954	1.156	0.876
PonA1	0.986	0.437
EccD1_KO	-0.789	-0.454
EspI_KO	-1.454	-0.394
PE35_KO	-1.388	-0.403
PPE68_KO	-0.346	0.0
glycerol2	0.377	0.0
lignocerate	-0.511	0.0
oleate	0.142	0.0
phosphatidylcholine	1.518	0.0
acetate	0.073	0.0
glucAc	-0.207	0.0
Rv0950ko	1.288	0.0
Rv1096ko	0.618	0.416
Rv3684ko	1.009	0.0
delta_otsA_trehalose	0.135	0.0