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 Rv0645c/mmaA1

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

	Rv1546/-	Rv0645c/mmaA1
Fe_supp_jason_reseq	-1.364	0.107
low_pH_jason_reseq	0.452	0.637
NO_jason_reseq	1.315	0.995
B6_jason_reseq	0.499	2.126
MHCII_jason_reseq	0.705	1.105
Isoniazid02	0.208	0.914
Rifampicin4	0.923	-1.389
Ethambutol3	-0.024	-0.306
Meropenem3	1.798	0.21
Vancomycin16	0.297	-1.273
Rv2680_day32	0.993	2.853
H37Rv_KO_MarP	0.174	0.066
hypoxia_3wks	1.647	0.49
hypoxia_6wks	1.576	2.583
glycerol	-0.999	-0.214
cholesterol	0.0	-0.666
AJ	0.292	-0.064
Bibs02	-0.013	-0.715
Bibs02c	-0.456	-0.167
BL6	0.777	1.596
BL6a	-0.432	1.415
BXD01	1.411	2.284
BXD010	-0.225	2.033
BXD011	0.766	3.383
BXD03	-0.517	1.125
BXD04	1.519	1.855
BXD05	0.631	1.878
BXD06	0.322	2.018
BXD07	0.986	2.279
BXD08	0.644	2.369
BXD09	1.048	2.252
CAST	0.823	1.013
CCcont	-1.829	0.102
DS01	-0.31	-0.44
DS02	-0.714	0.296
DS04	0.769	-0.159
DS0c	0.449	-0.822
GP01	1.724	2.116
GP02	0.682	2.451
GP0c	1.278	1.458
NOD	1.259	0.195
NZO	0.324	1.079
PWK	0.828	0.189
H37Rv_KO_CtpC	0.419	0.047
H37Rv_KO_CtpD	-1.857	0.307
H37Rv_KO_Rv1272	1.129	0.635
H37Rv_KO_SugABC	-0.047	1.228
H37Rv_KO_MbtN	1.098	1.404
Trans05	1.966	1.652
macrophage_unactivated	-0.319	-0.928
IL1	0.231	0.457
Rapamycin	-1.068	-0.405
Tcell	0.254	0.613
GMCSF	-0.364	0.066
IFNab	-1.119	-0.665
IFNg	-0.631	0.684
IFNg_GMCSF1	0.28	1.119
Rv1432_day32	1.587	5.021
Rv1565c_day32	0.873	-0.164
secA2_input	0.734	0.194
delta_Rv3594	-0.506	0.736
delta_Rv3717	1.626	2.551
delta_Rv3811	0.427	1.344
delta_Rv0954	-0.187	-0.438
PonA1	-0.549	-0.88
EccD1_KO	-0.135	-0.799
EspI_KO	0.627	-0.665
PE35_KO	-0.715	-1.24
PPE68_KO	-0.531	-1.206
glycerol2	0.3	0.581
lignocerate	-0.58	0.11
oleate	1.136	0.006
phosphatidylcholine	0.245	0.347
acetate	-0.884	0.027
glucAc	-1.069	0.549
Rv0950ko	0.0	0.404
Rv1096ko	-0.075	-0.29
Rv3684ko	1.264	0.501
delta_otsA_trehalose	0.431	0.573