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 Rv0309/-

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

	Rv3695/-	Rv0309/-
Fe_supp_jason_reseq	-0.86	-1.236
low_pH_jason_reseq	-2.494	-1.338
NO_jason_reseq	-1.788	-0.079
B6_jason_reseq	-1.093	-0.814
MHCII_jason_reseq	-0.8	-1.617
Isoniazid02	-0.787	-0.713
Rifampicin4	0.119	-3.493
Ethambutol3	0.829	1.936
Meropenem3	0.603	1.336
Vancomycin16	0.194	-0.698
Rv2680_day32	-0.154	1.423
H37Rv_KO_MarP	-1.541	-2.34
hypoxia_3wks	0.163	-0.682
hypoxia_6wks	0.572	-0.052
glycerol	-1.725	-0.889
cholesterol	-0.747	0.734
AJ	0.993	0.074
Bibs02	-0.384	0.964
Bibs02c	1.558	0.696
BL6	1.26	1.436
BL6a	1.501	1.986
BXD01	0.908	1.759
BXD010	0.548	2.381
BXD011	-0.332	1.917
BXD03	1.2	1.948
BXD04	0.945	2.591
BXD05	0.67	2.955
BXD06	0.351	2.962
BXD07	0.568	2.077
BXD08	0.186	1.625
BXD09	0.277	1.995
CAST	0.859	1.026
CCcont	0.793	1.276
DS01	-0.7	1.027
DS02	-1.122	0.069
DS04	0.849	1.023
DS0c	-0.933	0.748
GP01	1.207	1.221
GP02	0.442	-0.366
GP0c	1.297	1.074
NOD	-0.625	0.107
NZO	1.348	0.0
PWK	2.835	2.842
H37Rv_KO_CtpC	1.252	0.671
H37Rv_KO_CtpD	-0.398	0.1
H37Rv_KO_Rv1272	0.146	1.806
H37Rv_KO_SugABC	1.541	0.955
H37Rv_KO_MbtN	1.843	0.738
Trans05	-0.703	1.373
macrophage_unactivated	-0.382	0.129
IL1	0.184	0.0
Rapamycin	-0.479	0.126
Tcell	-0.212	0.541
GMCSF	-0.084	0.438
IFNab	1.584	0.747
IFNg	0.192	0.267
IFNg_GMCSF1	0.842	0.694
Rv1432_day32	-0.819	1.09
Rv1565c_day32	-0.746	0.603
secA2_input	-2.552	-1.774
delta_Rv3594	1.231	0.375
delta_Rv3717	0.714	0.993
delta_Rv3811	0.526	0.479
delta_Rv0954	0.18	-0.041
PonA1	1.809	-0.826
EccD1_KO	1.02	-0.562
EspI_KO	-0.245	-0.57
PE35_KO	0.236	-0.379
PPE68_KO	0.506	0.08
glycerol2	-1.103	0.149
lignocerate	-0.306	0.324
oleate	0.839	0.75
phosphatidylcholine	-0.496	-0.426
acetate	0.068	0.879
glucAc	-0.089	0.227
Rv0950ko	0.582	-1.089
Rv1096ko	1.99	-0.109
Rv3684ko	2.109	0.337
delta_otsA_trehalose	-0.457	-0.116