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 Rv0183/-

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

	Rv1546/-	Rv0183/-
Fe_supp_jason_reseq	-1.364	-1.193
low_pH_jason_reseq	0.452	-0.045
NO_jason_reseq	1.315	0.591
B6_jason_reseq	0.499	1.202
MHCII_jason_reseq	0.705	0.326
Isoniazid02	0.208	0.147
Rifampicin4	0.923	0.98
Ethambutol3	-0.024	0.75
Meropenem3	1.798	0.228
Vancomycin16	0.297	0.21
Rv2680_day32	0.993	1.174
H37Rv_KO_MarP	0.174	-1.641
hypoxia_3wks	1.647	1.463
hypoxia_6wks	1.576	2.234
glycerol	-0.999	0.528
cholesterol	0.0	0.483
AJ	0.292	-0.921
Bibs02	-0.013	0.23
Bibs02c	-0.456	0.443
BL6	0.777	1.514
BL6a	-0.432	0.749
BXD01	1.411	0.526
BXD010	-0.225	0.574
BXD011	0.766	1.51
BXD03	-0.517	0.244
BXD04	1.519	1.241
BXD05	0.631	0.878
BXD06	0.322	1.071
BXD07	0.986	1.235
BXD08	0.644	0.827
BXD09	1.048	0.899
CAST	0.823	0.782
CCcont	-1.829	-0.257
DS01	-0.31	0.029
DS02	-0.714	-0.577
DS04	0.769	0.569
DS0c	0.449	-0.563
GP01	1.724	1.714
GP02	0.682	1.073
GP0c	1.278	1.239
NOD	1.259	-0.399
NZO	0.324	0.822
PWK	0.828	0.0
H37Rv_KO_CtpC	0.419	-1.697
H37Rv_KO_CtpD	-1.857	-0.876
H37Rv_KO_Rv1272	1.129	-0.091
H37Rv_KO_SugABC	-0.047	0.839
H37Rv_KO_MbtN	1.098	0.402
Trans05	1.966	1.125
macrophage_unactivated	-0.319	-1.064
IL1	0.231	0.009
Rapamycin	-1.068	-0.239
Tcell	0.254	-0.29
GMCSF	-0.364	0.177
IFNab	-1.119	0.435
IFNg	-0.631	0.0
IFNg_GMCSF1	0.28	-0.075
Rv1432_day32	1.587	1.737
Rv1565c_day32	0.873	1.24
secA2_input	0.734	0.26
delta_Rv3594	-0.506	-0.601
delta_Rv3717	1.626	0.771
delta_Rv3811	0.427	-0.019
delta_Rv0954	-0.187	-0.689
PonA1	-0.549	-0.375
EccD1_KO	-0.135	-0.398
EspI_KO	0.627	-0.776
PE35_KO	-0.715	-1.266
PPE68_KO	-0.531	-1.459
glycerol2	0.3	0.703
lignocerate	-0.58	1.153
oleate	1.136	-0.498
phosphatidylcholine	0.245	0.015
acetate	-0.884	0.437
glucAc	-1.069	0.34
Rv0950ko	0.0	-0.229
Rv1096ko	-0.075	0.727
Rv3684ko	1.264	0.557
delta_otsA_trehalose	0.431	-0.067