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 Rv1334/mec

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

	Rv1546/-	Rv1334/mec
Fe_supp_jason_reseq	-1.364	-1.481
low_pH_jason_reseq	0.452	-0.197
NO_jason_reseq	1.315	1.011
B6_jason_reseq	0.499	-0.525
MHCII_jason_reseq	0.705	-0.587
Isoniazid02	0.208	1.746
Rifampicin4	0.923	0.127
Ethambutol3	-0.024	0.078
Meropenem3	1.798	0.642
Vancomycin16	0.297	1.117
Rv2680_day32	0.993	0.825
H37Rv_KO_MarP	0.174	0.268
hypoxia_3wks	1.647	1.826
hypoxia_6wks	1.576	2.462
glycerol	-0.999	0.057
cholesterol	0.0	0.261
AJ	0.292	-0.324
Bibs02	-0.013	-0.542
Bibs02c	-0.456	0.597
BL6	0.777	0.722
BL6a	-0.432	1.194
BXD01	1.411	1.351
BXD010	-0.225	1.985
BXD011	0.766	2.172
BXD03	-0.517	0.748
BXD04	1.519	1.201
BXD05	0.631	1.843
BXD06	0.322	1.645
BXD07	0.986	1.663
BXD08	0.644	1.376
BXD09	1.048	1.363
CAST	0.823	-0.813
CCcont	-1.829	-0.134
DS01	-0.31	-0.987
DS02	-0.714	-1.089
DS04	0.769	-0.523
DS0c	0.449	-0.137
GP01	1.724	0.192
GP02	0.682	0.74
GP0c	1.278	1.04
NOD	1.259	0.151
NZO	0.324	0.325
PWK	0.828	-0.176
H37Rv_KO_CtpC	0.419	-0.648
H37Rv_KO_CtpD	-1.857	-0.362
H37Rv_KO_Rv1272	1.129	0.7
H37Rv_KO_SugABC	-0.047	1.725
H37Rv_KO_MbtN	1.098	1.499
Trans05	1.966	0.873
macrophage_unactivated	-0.319	-2.108
IL1	0.231	1.356
Rapamycin	-1.068	-0.384
Tcell	0.254	-0.609
GMCSF	-0.364	-1.04
IFNab	-1.119	0.46
IFNg	-0.631	0.182
IFNg_GMCSF1	0.28	0.053
Rv1432_day32	1.587	0.245
Rv1565c_day32	0.873	-0.828
secA2_input	0.734	0.204
delta_Rv3594	-0.506	0.704
delta_Rv3717	1.626	2.015
delta_Rv3811	0.427	1.691
delta_Rv0954	-0.187	-0.207
PonA1	-0.549	-0.103
EccD1_KO	-0.135	-0.957
EspI_KO	0.627	-1.001
PE35_KO	-0.715	-1.149
PPE68_KO	-0.531	-1.085
glycerol2	0.3	-0.82
lignocerate	-0.58	-2.169
oleate	1.136	1.965
phosphatidylcholine	0.245	-1.476
acetate	-0.884	-0.755
glucAc	-1.069	-0.862
Rv0950ko	0.0	-0.473
Rv1096ko	-0.075	0.03
Rv3684ko	1.264	0.321
delta_otsA_trehalose	0.431	0.117