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 Rv3689/-

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

	Rv3695/-	Rv3689/-
Fe_supp_jason_reseq	-0.86	-0.388
low_pH_jason_reseq	-2.494	-1.681
NO_jason_reseq	-1.788	0.105
B6_jason_reseq	-1.093	0.499
MHCII_jason_reseq	-0.8	-0.62
Isoniazid02	-0.787	-1.107
Rifampicin4	0.119	0.495
Ethambutol3	0.829	0.951
Meropenem3	0.603	-0.364
Vancomycin16	0.194	-0.058
Rv2680_day32	-0.154	-0.811
H37Rv_KO_MarP	-1.541	-1.24
hypoxia_3wks	0.163	0.638
hypoxia_6wks	0.572	0.739
glycerol	-1.725	-0.295
cholesterol	-0.747	-0.2
AJ	0.993	0.576
Bibs02	-0.384	-0.311
Bibs02c	1.558	-0.073
BL6	1.26	0.728
BL6a	1.501	0.844
BXD01	0.908	1.055
BXD010	0.548	0.8
BXD011	-0.332	0.852
BXD03	1.2	1.454
BXD04	0.945	1.548
BXD05	0.67	1.047
BXD06	0.351	0.962
BXD07	0.568	1.026
BXD08	0.186	1.004
BXD09	0.277	0.486
CAST	0.859	1.677
CCcont	0.793	0.27
DS01	-0.7	-0.202
DS02	-1.122	0.044
DS04	0.849	0.225
DS0c	-0.933	-0.091
GP01	1.207	0.821
GP02	0.442	0.096
GP0c	1.297	0.85
NOD	-0.625	0.957
NZO	1.348	1.16
PWK	2.835	2.364
H37Rv_KO_CtpC	1.252	0.806
H37Rv_KO_CtpD	-0.398	0.981
H37Rv_KO_Rv1272	0.146	0.967
H37Rv_KO_SugABC	1.541	1.067
H37Rv_KO_MbtN	1.843	1.472
Trans05	-0.703	0.496
macrophage_unactivated	-0.382	0.079
IL1	0.184	-0.374
Rapamycin	-0.479	-0.997
Tcell	-0.212	0.508
GMCSF	-0.084	0.132
IFNab	1.584	0.206
IFNg	0.192	0.722
IFNg_GMCSF1	0.842	0.452
Rv1432_day32	-0.819	1.172
Rv1565c_day32	-0.746	-0.482
secA2_input	-2.552	-0.488
delta_Rv3594	1.231	-0.58
delta_Rv3717	0.714	-0.205
delta_Rv3811	0.526	-0.21
delta_Rv0954	0.18	-0.979
PonA1	1.809	-0.099
EccD1_KO	1.02	0.122
EspI_KO	-0.245	-0.217
PE35_KO	0.236	0.295
PPE68_KO	0.506	0.208
glycerol2	-1.103	0.27
lignocerate	-0.306	-0.029
oleate	0.839	0.717
phosphatidylcholine	-0.496	-0.052
acetate	0.068	0.284
glucAc	-0.089	0.188
Rv0950ko	0.582	0.202
Rv1096ko	1.99	0.85
Rv3684ko	2.109	0.799
delta_otsA_trehalose	-0.457	-0.482