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 Rv2286c/-:

update plot	correlation	link to info on gene
Rv1662/pks8	(cc=0.5405)	info on Rv1662/pks8
Rv1964/yrbE3A	(cc=0.4348)	info on Rv1964/yrbE3A
Rv3070/-	(cc=0.4133)	info on Rv3070/-
Rv1076/lipU	(cc=0.4132)	info on Rv1076/lipU
Rv0346c/ansP2	(cc=0.4094)	info on Rv0346c/ansP2
Rv2767c/-	(cc=0.4075)	info on Rv2767c/-
Rv1557/mmpL6	(cc=0.4048)	info on Rv1557/mmpL6
Rv1980c/mpt64	(cc=0.4005)	info on Rv1980c/mpt64
Rv2558/-	(cc=0.3882)	info on Rv2558/-
Rv2231c/cobC	(cc=0.3881)	info on Rv2231c/cobC

Correlation of Rv2286c/- with Rv1662/pks8

Normalized LFCs for Rv2286c/-:
(description and provenance of datasets)

	Rv2286c/-	Rv1662/pks8
Fe_supp_jason_reseq	-0.799	-0.458
low_pH_jason_reseq	-0.052	0.403
NO_jason_reseq	-0.081	-0.362
B6_jason_reseq	-0.688	-0.97
MHCII_jason_reseq	-0.484	-0.509
Isoniazid02	-0.054	-0.767
Rifampicin4	-1.007	-1.097
Ethambutol3	-0.584	-0.313
Meropenem3	-0.435	-1.234
Vancomycin16	-0.138	-0.974
Rv2680_day32	0.898	-0.228
H37Rv_KO_MarP	-0.246	-0.214
hypoxia_3wks	0.096	0.55
hypoxia_6wks	0.198	0.378
glycerol	-0.908	-0.471
cholesterol	-1.314	-0.583
AJ	0.382	0.274
Bibs02	1.003	0.531
Bibs02c	-0.182	-0.279
BL6	1.322	0.739
BL6a	0.234	0.637
BXD01	-0.07	0.496
BXD010	0.431	0.873
BXD011	0.243	0.626
BXD03	0.326	0.699
BXD04	0.063	0.64
BXD05	0.042	0.513
BXD06	0.17	0.69
BXD07	0.558	0.75
BXD08	0.013	0.786
BXD09	0.699	0.615
CAST	-0.307	0.095
CCcont	0.219	0.694
DS01	-0.287	-0.205
DS02	-0.397	-0.397
DS04	-0.61	0.436
DS0c	0.432	-0.189
GP01	1.435	0.584
GP02	-0.52	-0.111
GP0c	0.092	0.154
NOD	0.023	0.0
NZO	0.432	-0.364
PWK	1.304	0.44
H37Rv_KO_CtpC	1.458	1.072
H37Rv_KO_CtpD	1.137	0.368
H37Rv_KO_Rv1272	0.954	1.677
H37Rv_KO_SugABC	-1.775	-0.601
H37Rv_KO_MbtN	0.657	1.817
Trans05	1.095	0.891
macrophage_unactivated	0.672	1.016
IL1	0.519	0.558
Rapamycin	0.654	0.353
Tcell	0.57	0.375
GMCSF	0.251	-0.108
IFNab	0.227	0.348
IFNg	0.086	0.775
IFNg_GMCSF1	1.2	0.911
Rv1432_day32	0.327	0.143
Rv1565c_day32	-0.493	0.212
secA2_input	0.186	-0.197
delta_Rv3594	0.959	0.474
delta_Rv3717	0.174	0.269
delta_Rv3811	1.038	0.461
delta_Rv0954	1.001	0.46
PonA1	0.613	-0.966
EccD1_KO	0.431	-0.151
EspI_KO	0.399	-0.405
PE35_KO	-0.117	0.831
PPE68_KO	0.243	0.793
glycerol2	0.311	-0.531
lignocerate	-0.017	-0.093
oleate	0.465	-0.469
phosphatidylcholine	0.311	-0.106
acetate	0.224	-0.062
glucAc	1.153	0.146
Rv0950ko	-0.739	0.13
Rv1096ko	0.884	1.05
Rv3684ko	-0.18	0.789
delta_otsA_trehalose	0.648	-0.15