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 Rv1850/ureC:

update plot	correlation	link to info on gene
Rv2274c/mazF8	(cc=0.5529)	info on Rv2274c/mazF8
Rv1364c/-	(cc=0.4968)	info on Rv1364c/-
Rv1571/-	(cc=0.4867)	info on Rv1571/-
Rv1920/-	(cc=0.4828)	info on Rv1920/-
Rv2275/-	(cc=0.482)	info on Rv2275/-
Rv2818c/-	(cc=0.4719)	info on Rv2818c/-
Rv1504c/-	(cc=0.464)	info on Rv1504c/-
Rv1551/plsB1	(cc=0.4528)	info on Rv1551/plsB1
Rv0505c/serB1	(cc=0.4448)	info on Rv0505c/serB1
Rv2847c/cysG	(cc=0.4396)	info on Rv2847c/cysG

Correlation of Rv1850/ureC with Rv2847c/cysG

Normalized LFCs for Rv1850/ureC:
(description and provenance of datasets)

	Rv1850/ureC	Rv2847c/cysG
Fe_supp_jason_reseq	-0.583	0.0
low_pH_jason_reseq	-0.756	0.0
NO_jason_reseq	-0.386	0.0
B6_jason_reseq	-0.675	0.0
MHCII_jason_reseq	-0.715	0.0
Isoniazid02	-0.288	1.718
Rifampicin4	0.252	-0.271
Ethambutol3	-0.479	-0.392
Meropenem3	0.948	0.111
Vancomycin16	-0.448	-0.265
Rv2680_day32	-0.1	0.0
H37Rv_KO_MarP	-0.155	-0.535
hypoxia_3wks	0.044	0.0
hypoxia_6wks	0.758	0.0
glycerol	-0.219	0.0
cholesterol	0.323	0.0
AJ	0.439	0.0
Bibs02	-0.842	0.0
Bibs02c	0.483	0.209
BL6	0.289	0.0
BL6a	0.268	0.0
BXD01	0.853	0.0
BXD010	0.53	0.0
BXD011	0.0	0.0
BXD03	0.302	0.0
BXD04	0.642	0.0
BXD05	-0.293	0.0
BXD06	0.341	0.0
BXD07	0.543	0.0
BXD08	0.193	0.0
BXD09	0.165	0.0
CAST	-0.591	0.0
CCcont	-0.048	0.0
DS01	0.426	0.0
DS02	0.353	0.0
DS04	0.464	0.0
DS0c	-0.115	0.0
GP01	-0.685	0.0
GP02	-0.577	0.083
GP0c	-0.171	0.13
NOD	-0.667	0.0
NZO	0.081	0.0
PWK	-0.583	0.0
H37Rv_KO_CtpC	0.016	0.0
H37Rv_KO_CtpD	-0.26	0.127
H37Rv_KO_Rv1272	0.688	0.0
H37Rv_KO_SugABC	0.212	0.0
H37Rv_KO_MbtN	1.53	0.437
Trans05	0.576	0.0
macrophage_unactivated	-0.17	0.0
IL1	0.306	0.0
Rapamycin	0.353	0.0
Tcell	0.909	0.0
GMCSF	0.647	0.0
IFNab	-0.248	0.0
IFNg	-0.11	0.0
IFNg_GMCSF1	-0.258	0.0
Rv1432_day32	-0.074	0.0
Rv1565c_day32	0.366	0.0
secA2_input	-1.104	-0.916
delta_Rv3594	0.682	0.0
delta_Rv3717	0.44	0.0
delta_Rv3811	0.054	0.0
delta_Rv0954	-0.6	0.178
PonA1	-0.199	0.304
EccD1_KO	0.362	1.145
EspI_KO	-0.054	0.0
PE35_KO	0.895	1.578
PPE68_KO	1.267	1.731
glycerol2	-0.659	-0.531
lignocerate	-0.067	-0.462
oleate	-0.445	-0.537
phosphatidylcholine	0.09	-0.531
acetate	-0.455	-0.63
glucAc	-0.297	-0.392
Rv0950ko	-1.96	-0.582
Rv1096ko	-0.742	-0.582
Rv3684ko	-0.593	-0.632
delta_otsA_trehalose	0.231	0.468