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 Rv2429/ahpD:

update plot	correlation	link to info on gene
Rv0713/-	(cc=0.5404)	info on Rv0713/-
Rv1511/gmdA	(cc=0.4924)	info on Rv1511/gmdA
Rv2289/cdh	(cc=0.4917)	info on Rv2289/cdh
Rv2953/-	(cc=0.4832)	info on Rv2953/-
Rv0873/fadE10	(cc=0.4783)	info on Rv0873/fadE10
Rv2954c/-	(cc=0.4693)	info on Rv2954c/-
Rv2399c/cysT	(cc=0.4632)	info on Rv2399c/cysT
Rv3680/-	(cc=0.4458)	info on Rv3680/-
Rv3490/otsA	(cc=0.443)	info on Rv3490/otsA
Rv2284/lipM	(cc=0.4402)	info on Rv2284/lipM

Correlation of Rv2429/ahpD with Rv3490/otsA

Normalized LFCs for Rv2429/ahpD:
(description and provenance of datasets)

	Rv2429/ahpD	Rv3490/otsA
Fe_supp_jason_reseq	0.174	0.0
low_pH_jason_reseq	-0.867	0.0
NO_jason_reseq	0.0	0.0
B6_jason_reseq	0.363	0.0
MHCII_jason_reseq	1.557	0.0
Isoniazid02	-4.061	-0.383
Rifampicin4	0.171	0.601
Ethambutol3	0.32	0.14
Meropenem3	-0.819	-0.151
Vancomycin16	0.167	1.101
Rv2680_day32	-0.016	0.0
H37Rv_KO_MarP	0.567	-0.151
hypoxia_3wks	0.311	0.0
hypoxia_6wks	0.464	0.0
glycerol	0.178	0.202
cholesterol	0.015	0.276
AJ	0.513	0.0
Bibs02	0.212	0.0
Bibs02c	1.36	0.0
BL6	0.58	0.0
BL6a	1.118	0.0
BXD01	0.56	0.0
BXD010	-0.448	0.0
BXD011	-0.123	0.0
BXD03	0.107	0.0
BXD04	0.418	0.0
BXD05	0.719	0.0
BXD06	0.053	0.0
BXD07	0.822	0.0
BXD08	0.04	0.0
BXD09	-0.044	0.0
CAST	-0.072	0.0
CCcont	0.816	0.285
DS01	0.0	0.0
DS02	0.534	0.0
DS04	-0.37	0.0
DS0c	0.718	0.0
GP01	0.509	0.0
GP02	-1.258	0.0
GP0c	-1.082	0.0
NOD	0.57	0.0
NZO	-0.481	0.0
PWK	0.155	0.0
H37Rv_KO_CtpC	-0.592	0.0
H37Rv_KO_CtpD	0.751	0.0
H37Rv_KO_Rv1272	0.029	0.0
H37Rv_KO_SugABC	0.283	0.0
H37Rv_KO_MbtN	0.401	0.0
Trans05	1.134	0.0
macrophage_unactivated	0.294	0.0
IL1	-1.006	0.0
Rapamycin	0.083	0.0
Tcell	-0.228	0.0
GMCSF	1.014	0.0
IFNab	-0.085	0.0
IFNg	0.732	0.0
IFNg_GMCSF1	0.17	0.0
Rv1432_day32	0.9	0.0
Rv1565c_day32	0.147	0.0
secA2_input	-2.016	-0.916
delta_Rv3594	1.462	0.0
delta_Rv3717	0.132	0.0
delta_Rv3811	1.077	0.0
delta_Rv0954	1.145	0.0
PonA1	0.709	0.0
EccD1_KO	-0.756	-1.145
EspI_KO	0.171	0.55
PE35_KO	0.502	1.706
PPE68_KO	0.963	0.896
glycerol2	0.943	0.0
lignocerate	0.839	0.0
oleate	0.818	0.0
phosphatidylcholine	0.796	0.0
acetate	0.519	0.229
glucAc	0.423	0.392
Rv0950ko	-0.853	-0.844
Rv1096ko	-1.668	-1.517
Rv3684ko	-1.723	-0.917
delta_otsA_trehalose	1.015	0.0