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 Rv0386/-:

update plot	correlation	link to info on gene
Rv0229c/-	(cc=0.5902)	info on Rv0229c/-
Rv1046c/-	(cc=0.5679)	info on Rv1046c/-
Rv0359/-	(cc=0.5372)	info on Rv0359/-
Rv3062/ligB	(cc=0.534)	info on Rv3062/ligB
Rv1032c/trcS	(cc=0.5292)	info on Rv1032c/trcS
Rv1632c/-	(cc=0.5239)	info on Rv1632c/-
Rv3136A/-	(cc=0.5235)	info on Rv3136A/-
Rv0470A/-	(cc=0.5232)	info on Rv0470A/-
Rv3655c/-	(cc=0.5219)	info on Rv3655c/-
Rv0965c/-	(cc=0.5211)	info on Rv0965c/-

Correlation of Rv0386/- with Rv0229c/-

Normalized LFCs for Rv0386/-:
(description and provenance of datasets)

	Rv0386/-	Rv0229c/-
Fe_supp_jason_reseq	-0.396	0.813
low_pH_jason_reseq	0.064	-0.32
NO_jason_reseq	0.234	-0.184
B6_jason_reseq	1.913	1.177
MHCII_jason_reseq	0.462	0.76
Isoniazid02	1.461	0.909
Rifampicin4	-0.106	0.225
Ethambutol3	1.66	1.019
Meropenem3	0.108	1.029
Vancomycin16	0.202	0.31
Rv2680_day32	-0.185	-0.057
H37Rv_KO_MarP	0.598	0.82
hypoxia_3wks	0.132	-0.179
hypoxia_6wks	0.138	-0.319
glycerol	0.01	-0.538
cholesterol	-0.205	-0.273
AJ	-0.101	-0.313
Bibs02	0.532	0.041
Bibs02c	0.226	1.122
BL6	0.13	0.289
BL6a	0.056	0.354
BXD01	-0.611	-0.479
BXD010	-0.231	0.217
BXD011	-0.35	-0.998
BXD03	-0.092	-0.36
BXD04	-0.627	-1.112
BXD05	-0.377	-0.695
BXD06	-0.451	-0.629
BXD07	-0.449	-0.464
BXD08	-0.485	-0.805
BXD09	-0.343	-0.324
CAST	0.776	-0.08
CCcont	-0.564	-0.421
DS01	-0.272	0.423
DS02	0.08	0.6
DS04	0.167	0.5
DS0c	-0.159	-0.115
GP01	0.302	0.177
GP02	0.233	-0.174
GP0c	-0.325	0.233
NOD	0.47	0.708
NZO	0.41	0.308
PWK	0.236	-0.523
H37Rv_KO_CtpC	0.491	-0.652
H37Rv_KO_CtpD	0.12	-0.435
H37Rv_KO_Rv1272	-0.611	-0.387
H37Rv_KO_SugABC	-0.024	-0.599
H37Rv_KO_MbtN	-0.606	-0.886
Trans05	-0.063	0.406
macrophage_unactivated	0.42	1.758
IL1	-0.021	0.24
Rapamycin	-0.129	-0.11
Tcell	0.046	0.339
GMCSF	0.037	-0.063
IFNab	-0.215	0.574
IFNg	0.27	0.155
IFNg_GMCSF1	0.088	0.597
Rv1432_day32	0.441	0.403
Rv1565c_day32	-0.114	-0.057
secA2_input	0.0	-0.435
delta_Rv3594	-0.28	-0.551
delta_Rv3717	0.081	-0.609
delta_Rv3811	-0.372	-0.535
delta_Rv0954	-0.349	0.372
PonA1	0.349	-0.11
EccD1_KO	0.73	0.105
EspI_KO	0.251	-0.416
PE35_KO	0.0	-0.195
PPE68_KO	-0.109	-0.323
glycerol2	0.136	0.376
lignocerate	0.229	0.078
oleate	0.422	0.163
phosphatidylcholine	0.148	0.031
acetate	0.05	-0.667
glucAc	-0.021	-0.385
Rv0950ko	0.703	0.654
Rv1096ko	0.938	1.439
Rv3684ko	1.019	0.514
delta_otsA_trehalose	0.059	-0.449