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 Rv2011c/-:

update plot	correlation	link to info on gene
Rv2623/TB31.7	(cc=0.4728)	info on Rv2623/TB31.7
Rv0590A/-	(cc=0.4578)	info on Rv0590A/-
Rv0829/-	(cc=0.4435)	info on Rv0829/-
Rv1352/-	(cc=0.4417)	info on Rv1352/-
Rv1725c/-	(cc=0.4186)	info on Rv1725c/-
Rv2919c/glnB	(cc=0.4182)	info on Rv2919c/glnB
Rv0349/-	(cc=0.4145)	info on Rv0349/-
Rv2416c/eis	(cc=0.4097)	info on Rv2416c/eis
Rv0084/hycD	(cc=0.4044)	info on Rv0084/hycD
Rv1038c/esxJ	(cc=0.399)	info on Rv1038c/esxJ

Correlation of Rv2011c/- with Rv0590A/-

Normalized LFCs for Rv2011c/-:
(description and provenance of datasets)

	Rv2011c/-	Rv0590A/-
Fe_supp_jason_reseq	0.818	0.663
low_pH_jason_reseq	-0.318	-0.572
NO_jason_reseq	-0.142	-0.163
B6_jason_reseq	0.151	-2.111
MHCII_jason_reseq	-0.09	-0.04
Isoniazid02	0.194	-0.336
Rifampicin4	0.236	-0.301
Ethambutol3	0.083	-0.441
Meropenem3	0.305	1.26
Vancomycin16	-0.273	-0.451
Rv2680_day32	-1.585	-0.708
H37Rv_KO_MarP	0.594	0.229
hypoxia_3wks	-0.666	0.271
hypoxia_6wks	-1.326	0.691
glycerol	-1.624	-0.113
cholesterol	0.107	-0.35
AJ	0.82	-0.313
Bibs02	2.152	-1.137
Bibs02c	0.299	0.0
BL6	0.613	1.26
BL6a	0.304	-0.036
BXD01	0.84	0.472
BXD010	0.498	1.416
BXD011	0.329	0.699
BXD03	0.736	0.652
BXD04	0.654	0.478
BXD05	0.712	0.738
BXD06	-0.052	1.416
BXD07	0.931	0.333
BXD08	-0.716	0.729
BXD09	0.571	0.871
CAST	1.338	0.891
CCcont	0.62	1.908
DS01	0.465	-1.547
DS02	-1.171	-1.498
DS04	0.651	-1.627
DS0c	0.211	0.892
GP01	-0.619	1.282
GP02	1.254	-0.698
GP0c	0.891	-0.439
NOD	-0.148	-0.932
NZO	-0.214	0.139
PWK	-0.156	0.901
H37Rv_KO_CtpC	1.037	1.234
H37Rv_KO_CtpD	-1.246	-0.306
H37Rv_KO_Rv1272	1.706	1.361
H37Rv_KO_SugABC	-0.644	-1.472
H37Rv_KO_MbtN	-0.43	0.449
Trans05	0.389	-0.097
macrophage_unactivated	0.83	-0.246
IL1	0.469	-0.098
Rapamycin	-0.104	-0.206
Tcell	0.072	-0.29
GMCSF	0.932	0.56
IFNab	0.565	-0.523
IFNg	0.778	1.272
IFNg_GMCSF1	0.035	0.069
Rv1432_day32	-0.192	0.0
Rv1565c_day32	-0.15	0.212
secA2_input	0.238	-0.668
delta_Rv3594	1.938	1.732
delta_Rv3717	0.714	1.292
delta_Rv3811	2.51	2.357
delta_Rv0954	1.092	0.981
PonA1	1.819	1.5
EccD1_KO	1.565	1.194
EspI_KO	1.166	0.964
PE35_KO	2.161	0.09
PPE68_KO	2.061	0.294
glycerol2	1.125	2.802
lignocerate	1.991	3.418
oleate	-1.853	0.0
phosphatidylcholine	1.197	3.055
acetate	1.393	4.271
glucAc	1.649	3.444
Rv0950ko	0.042	-0.175
Rv1096ko	-0.407	0.856
Rv3684ko	1.405	0.894
delta_otsA_trehalose	-0.592	-3.015