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 Rv1546/-:

update plot	correlation	link to info on gene
Rv2721c/-	(cc=0.5285)	info on Rv2721c/-
Rv0644c/mmaA2	(cc=0.5251)	info on Rv0644c/mmaA2
Rv1336/cysM	(cc=0.5003)	info on Rv1336/cysM
Rv0183/-	(cc=0.4971)	info on Rv0183/-
Rv0877/-	(cc=0.4921)	info on Rv0877/-
Rv3842c/glpQ1	(cc=0.4863)	info on Rv3842c/glpQ1
Rv0645c/mmaA1	(cc=0.4861)	info on Rv0645c/mmaA1
Rv1334/mec	(cc=0.4685)	info on Rv1334/mec
Rv0048c/-	(cc=0.4507)	info on Rv0048c/-
Rv2191/-	(cc=0.4464)	info on Rv2191/-

Correlation of Rv1546/- with Rv0048c/-

Normalized LFCs for Rv1546/-:
(description and provenance of datasets)

	Rv1546/-	Rv0048c/-
Fe_supp_jason_reseq	-1.364	-0.608
low_pH_jason_reseq	0.452	0.204
NO_jason_reseq	1.315	0.557
B6_jason_reseq	0.499	0.409
MHCII_jason_reseq	0.705	0.192
Isoniazid02	0.208	-0.493
Rifampicin4	0.923	-0.233
Ethambutol3	-0.024	1.6
Meropenem3	1.798	-0.174
Vancomycin16	0.297	0.244
Rv2680_day32	0.993	0.472
H37Rv_KO_MarP	0.174	0.382
hypoxia_3wks	1.647	0.092
hypoxia_6wks	1.576	1.065
glycerol	-0.999	-0.432
cholesterol	0.0	-0.367
AJ	0.292	0.548
Bibs02	-0.013	-0.172
Bibs02c	-0.456	0.065
BL6	0.777	0.282
BL6a	-0.432	0.557
BXD01	1.411	0.742
BXD010	-0.225	0.586
BXD011	0.766	1.182
BXD03	-0.517	0.682
BXD04	1.519	0.598
BXD05	0.631	0.75
BXD06	0.322	1.169
BXD07	0.986	0.94
BXD08	0.644	1.08
BXD09	1.048	0.662
CAST	0.823	0.534
CCcont	-1.829	-0.225
DS01	-0.31	-0.566
DS02	-0.714	-0.211
DS04	0.769	-0.042
DS0c	0.449	0.515
GP01	1.724	2.136
GP02	0.682	1.23
GP0c	1.278	1.334
NOD	1.259	0.182
NZO	0.324	1.269
PWK	0.828	0.888
H37Rv_KO_CtpC	0.419	-0.73
H37Rv_KO_CtpD	-1.857	0.404
H37Rv_KO_Rv1272	1.129	0.53
H37Rv_KO_SugABC	-0.047	1.214
H37Rv_KO_MbtN	1.098	0.647
Trans05	1.966	-0.115
macrophage_unactivated	-0.319	-0.098
IL1	0.231	0.098
Rapamycin	-1.068	0.068
Tcell	0.254	-0.046
GMCSF	-0.364	-0.465
IFNab	-1.119	-0.366
IFNg	-0.631	0.029
IFNg_GMCSF1	0.28	0.349
Rv1432_day32	1.587	1.12
Rv1565c_day32	0.873	-0.302
secA2_input	0.734	-0.421
delta_Rv3594	-0.506	-0.529
delta_Rv3717	1.626	0.049
delta_Rv3811	0.427	-0.049
delta_Rv0954	-0.187	0.059
PonA1	-0.549	-0.508
EccD1_KO	-0.135	0.099
EspI_KO	0.627	-0.257
PE35_KO	-0.715	-0.467
PPE68_KO	-0.531	-0.365
glycerol2	0.3	0.228
lignocerate	-0.58	-0.111
oleate	1.136	0.666
phosphatidylcholine	0.245	0.238
acetate	-0.884	-0.761
glucAc	-1.069	-0.578
Rv0950ko	0.0	0.368
Rv1096ko	-0.075	0.036
Rv3684ko	1.264	0.95
delta_otsA_trehalose	0.431	-0.86