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 Rv2721c/-

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

	Rv1546/-	Rv2721c/-
Fe_supp_jason_reseq	-1.364	-2.837
low_pH_jason_reseq	0.452	-0.529
NO_jason_reseq	1.315	2.3
B6_jason_reseq	0.499	0.429
MHCII_jason_reseq	0.705	-0.858
Isoniazid02	0.208	1.486
Rifampicin4	0.923	2.231
Ethambutol3	-0.024	-0.439
Meropenem3	1.798	2.082
Vancomycin16	0.297	-0.738
Rv2680_day32	0.993	-0.384
H37Rv_KO_MarP	0.174	-0.47
hypoxia_3wks	1.647	0.965
hypoxia_6wks	1.576	2.957
glycerol	-0.999	-0.262
cholesterol	0.0	0.358
AJ	0.292	-0.024
Bibs02	-0.013	-0.109
Bibs02c	-0.456	-0.677
BL6	0.777	0.481
BL6a	-0.432	0.408
BXD01	1.411	0.676
BXD010	-0.225	0.875
BXD011	0.766	1.091
BXD03	-0.517	1.083
BXD04	1.519	1.654
BXD05	0.631	0.924
BXD06	0.322	1.501
BXD07	0.986	0.721
BXD08	0.644	0.778
BXD09	1.048	0.469
CAST	0.823	0.853
CCcont	-1.829	-0.211
DS01	-0.31	-1.128
DS02	-0.714	-1.475
DS04	0.769	-0.36
DS0c	0.449	-1.193
GP01	1.724	1.362
GP02	0.682	0.963
GP0c	1.278	1.455
NOD	1.259	0.602
NZO	0.324	0.04
PWK	0.828	1.851
H37Rv_KO_CtpC	0.419	-0.94
H37Rv_KO_CtpD	-1.857	0.542
H37Rv_KO_Rv1272	1.129	-0.183
H37Rv_KO_SugABC	-0.047	0.602
H37Rv_KO_MbtN	1.098	1.345
Trans05	1.966	0.662
macrophage_unactivated	-0.319	-0.846
IL1	0.231	-0.196
Rapamycin	-1.068	-0.516
Tcell	0.254	-0.264
GMCSF	-0.364	-0.04
IFNab	-1.119	0.339
IFNg	-0.631	-0.326
IFNg_GMCSF1	0.28	-0.434
Rv1432_day32	1.587	-0.404
Rv1565c_day32	0.873	0.945
secA2_input	0.734	-0.128
delta_Rv3594	-0.506	0.262
delta_Rv3717	1.626	0.683
delta_Rv3811	0.427	0.578
delta_Rv0954	-0.187	0.066
PonA1	-0.549	-0.829
EccD1_KO	-0.135	-0.079
EspI_KO	0.627	-0.277
PE35_KO	-0.715	0.114
PPE68_KO	-0.531	-0.618
glycerol2	0.3	-0.673
lignocerate	-0.58	-1.168
oleate	1.136	1.056
phosphatidylcholine	0.245	-2.244
acetate	-0.884	-0.374
glucAc	-1.069	-0.403
Rv0950ko	0.0	0.28
Rv1096ko	-0.075	0.0
Rv3684ko	1.264	0.878
delta_otsA_trehalose	0.431	0.575