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 Rv3695/-:

update plot	correlation	link to info on gene
Rv3689/-	(cc=0.5796)	info on Rv3689/-
Rv3694c/-	(cc=0.5624)	info on Rv3694c/-
Rv2586c/secF	(cc=0.5074)	info on Rv2586c/secF
Rv2439c/proB	(cc=0.4903)	info on Rv2439c/proB
Rv1387/PPE20	(cc=0.4572)	info on Rv1387/PPE20
Rv1914c/-	(cc=0.4458)	info on Rv1914c/-
Rv3517/-	(cc=0.4453)	info on Rv3517/-
Rv2825c/-	(cc=0.4444)	info on Rv2825c/-
Rv0309/-	(cc=0.4388)	info on Rv0309/-
Rv2585c/-	(cc=0.4307)	info on Rv2585c/-

Correlation of Rv3695/- with Rv3517/-

Normalized LFCs for Rv3695/-:
(description and provenance of datasets)

	Rv3695/-	Rv3517/-
Fe_supp_jason_reseq	-0.86	0.3
low_pH_jason_reseq	-2.494	-1.491
NO_jason_reseq	-1.788	-0.541
B6_jason_reseq	-1.093	-0.856
MHCII_jason_reseq	-0.8	-0.266
Isoniazid02	-0.787	-0.419
Rifampicin4	0.119	0.65
Ethambutol3	0.829	0.514
Meropenem3	0.603	1.004
Vancomycin16	0.194	-0.297
Rv2680_day32	-0.154	-0.576
H37Rv_KO_MarP	-1.541	0.016
hypoxia_3wks	0.163	-0.427
hypoxia_6wks	0.572	-0.397
glycerol	-1.725	-0.793
cholesterol	-0.747	0.252
AJ	0.993	1.592
Bibs02	-0.384	0.736
Bibs02c	1.558	0.202
BL6	1.26	0.556
BL6a	1.501	-0.076
BXD01	0.908	0.731
BXD010	0.548	0.671
BXD011	-0.332	0.3
BXD03	1.2	0.891
BXD04	0.945	0.279
BXD05	0.67	0.234
BXD06	0.351	0.218
BXD07	0.568	0.084
BXD08	0.186	1.061
BXD09	0.277	0.589
CAST	0.859	0.14
CCcont	0.793	0.639
DS01	-0.7	0.869
DS02	-1.122	0.354
DS04	0.849	1.117
DS0c	-0.933	0.08
GP01	1.207	0.805
GP02	0.442	-0.124
GP0c	1.297	1.021
NOD	-0.625	1.778
NZO	1.348	0.803
PWK	2.835	1.833
H37Rv_KO_CtpC	1.252	1.432
H37Rv_KO_CtpD	-0.398	0.683
H37Rv_KO_Rv1272	0.146	1.625
H37Rv_KO_SugABC	1.541	0.39
H37Rv_KO_MbtN	1.843	-0.153
Trans05	-0.703	1.08
macrophage_unactivated	-0.382	0.698
IL1	0.184	0.036
Rapamycin	-0.479	-0.629
Tcell	-0.212	0.948
GMCSF	-0.084	0.063
IFNab	1.584	0.245
IFNg	0.192	-0.265
IFNg_GMCSF1	0.842	0.327
Rv1432_day32	-0.819	-0.394
Rv1565c_day32	-0.746	-0.357
secA2_input	-2.552	0.332
delta_Rv3594	1.231	-0.408
delta_Rv3717	0.714	-0.258
delta_Rv3811	0.526	0.016
delta_Rv0954	0.18	-0.362
PonA1	1.809	1.154
EccD1_KO	1.02	0.766
EspI_KO	-0.245	-0.439
PE35_KO	0.236	0.055
PPE68_KO	0.506	0.358
glycerol2	-1.103	0.611
lignocerate	-0.306	0.746
oleate	0.839	0.956
phosphatidylcholine	-0.496	0.728
acetate	0.068	0.12
glucAc	-0.089	0.223
Rv0950ko	0.582	0.036
Rv1096ko	1.99	1.616
Rv3684ko	2.109	1.33
delta_otsA_trehalose	-0.457	0.831