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 Rv0213c/-:

update plot	correlation	link to info on gene
Rv3812/PE_PGRS62	(cc=0.5641)	info on Rv3812/PE_PGRS62
Rv3233c/-	(cc=0.494)	info on Rv3233c/-
Rv0755c/PPE12	(cc=0.4929)	info on Rv0755c/PPE12
Rv0515/-	(cc=0.4854)	info on Rv0515/-
Rv3424c/-	(cc=0.4828)	info on Rv3424c/-
Rv1260/-	(cc=0.4703)	info on Rv1260/-
Rv3697c/vapC48	(cc=0.4698)	info on Rv3697c/vapC48
Rv2472/-	(cc=0.4678)	info on Rv2472/-
Rv0186A/mymT	(cc=0.4675)	info on Rv0186A/mymT
Rv0394c/-	(cc=0.461)	info on Rv0394c/-

Correlation of Rv0213c/- with Rv3812/PE_PGRS62

Normalized LFCs for Rv0213c/-:
(description and provenance of datasets)

	Rv0213c/-	Rv3812/PE_PGRS62
Fe_supp_jason_reseq	-0.581	0.186
low_pH_jason_reseq	-0.489	-0.512
NO_jason_reseq	0.155	-0.076
B6_jason_reseq	-0.017	0.253
MHCII_jason_reseq	1.053	0.593
Isoniazid02	-0.77	-0.899
Rifampicin4	0.217	0.179
Ethambutol3	-0.621	-0.293
Meropenem3	-0.046	-0.557
Vancomycin16	-0.05	-0.602
Rv2680_day32	0.122	-0.414
H37Rv_KO_MarP	0.478	0.405
hypoxia_3wks	0.267	0.084
hypoxia_6wks	0.0	0.186
glycerol	0.171	-0.562
cholesterol	0.236	-0.207
AJ	0.684	0.763
Bibs02	0.223	0.772
Bibs02c	1.075	0.884
BL6	0.283	0.192
BL6a	0.653	0.449
BXD01	0.331	0.047
BXD010	0.277	-0.006
BXD011	0.264	0.035
BXD03	0.085	0.136
BXD04	0.036	-0.358
BXD05	0.039	1.032
BXD06	0.237	0.06
BXD07	0.219	0.019
BXD08	0.35	0.03
BXD09	0.0	-0.026
CAST	1.081	0.581
CCcont	0.38	0.2
DS01	0.676	0.878
DS02	0.632	0.83
DS04	0.52	0.878
DS0c	0.751	0.786
GP01	-0.851	-0.298
GP02	0.219	-0.068
GP0c	-0.326	-0.22
NOD	1.539	0.583
NZO	0.461	0.546
PWK	0.672	0.408
H37Rv_KO_CtpC	-0.048	-0.452
H37Rv_KO_CtpD	0.637	0.76
H37Rv_KO_Rv1272	0.057	0.34
H37Rv_KO_SugABC	0.964	0.55
H37Rv_KO_MbtN	-0.529	-0.169
Trans05	0.543	-0.152
macrophage_unactivated	-0.287	-0.253
IL1	-0.792	-1.474
Rapamycin	0.0	-0.997
Tcell	0.094	1.124
GMCSF	-0.705	-1.352
IFNab	-0.06	-1.14
IFNg	-0.134	-1.251
IFNg_GMCSF1	-0.031	-0.591
Rv1432_day32	0.442	-0.156
Rv1565c_day32	0.239	0.33
secA2_input	0.045	0.169
delta_Rv3594	-0.48	0.496
delta_Rv3717	-0.395	-0.112
delta_Rv3811	-0.287	1.081
delta_Rv0954	-0.031	0.05
PonA1	-0.083	-0.028
EccD1_KO	0.247	-0.25
EspI_KO	-0.399	-0.921
PE35_KO	-0.318	-0.624
PPE68_KO	-0.182	-0.419
glycerol2	0.248	0.056
lignocerate	0.192	0.247
oleate	0.189	0.176
phosphatidylcholine	0.186	0.056
acetate	-0.193	0.57
glucAc	-0.32	0.195
Rv0950ko	0.419	0.115
Rv1096ko	0.178	0.338
Rv3684ko	0.655	-0.065
delta_otsA_trehalose	-0.306	0.433