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 Rv1149/-:

update plot	correlation	link to info on gene
Rv1042c/-	(cc=0.8949)	info on Rv1042c/-
Rv1041c/-	(cc=0.5896)	info on Rv1041c/-
Rv1135c/PPE16	(cc=0.5268)	info on Rv1135c/PPE16
Rv2673/aftC	(cc=0.481)	info on Rv2673/aftC
Rv2270/lppN	(cc=0.4556)	info on Rv2270/lppN
Rv1773c/-	(cc=0.4541)	info on Rv1773c/-
Rv3392c/cmaA1	(cc=0.4458)	info on Rv3392c/cmaA1
Rv2811/-	(cc=0.4378)	info on Rv2811/-
Rv2854/-	(cc=0.4282)	info on Rv2854/-
Rv0817c/-	(cc=0.4256)	info on Rv0817c/-

Correlation of Rv1149/- with Rv1135c/PPE16

Normalized LFCs for Rv1149/-:
(description and provenance of datasets)

	Rv1149/-	Rv1135c/PPE16
Fe_supp_jason_reseq	-1.566	-0.655
low_pH_jason_reseq	-1.532	-1.094
NO_jason_reseq	-0.37	-0.551
B6_jason_reseq	0.532	-0.13
MHCII_jason_reseq	0.553	0.093
Isoniazid02	0.048	0.362
Rifampicin4	1.235	1.075
Ethambutol3	0.495	0.67
Meropenem3	0.767	0.718
Vancomycin16	0.499	0.846
Rv2680_day32	-0.613	-0.104
H37Rv_KO_MarP	0.073	-0.344
hypoxia_3wks	1.236	-0.65
hypoxia_6wks	1.347	-0.443
glycerol	0.255	0.151
cholesterol	0.146	0.101
AJ	0.813	0.402
Bibs02	0.287	0.646
Bibs02c	1.363	0.382
BL6	-0.264	-0.562
BL6a	0.913	-0.37
BXD01	0.281	-0.218
BXD010	0.804	-0.642
BXD011	-0.142	-0.181
BXD03	0.807	-0.455
BXD04	-0.546	-0.192
BXD05	0.505	0.289
BXD06	0.326	-0.469
BXD07	0.399	-0.111
BXD08	-0.707	-0.267
BXD09	0.493	-0.472
CAST	0.232	-0.103
CCcont	-0.865	-1.193
DS01	0.743	0.26
DS02	0.432	0.365
DS04	0.195	0.916
DS0c	0.03	0.456
GP01	-2.51	-1.134
GP02	-1.23	0.087
GP0c	-0.676	-0.64
NOD	1.751	0.202
NZO	0.0	-0.373
PWK	0.895	0.429
H37Rv_KO_CtpC	3.594	0.187
H37Rv_KO_CtpD	1.213	0.473
H37Rv_KO_Rv1272	0.01	0.315
H37Rv_KO_SugABC	-1.653	-0.288
H37Rv_KO_MbtN	0.607	0.098
Trans05	0.951	0.446
macrophage_unactivated	-0.432	-0.48
IL1	0.059	-1.017
Rapamycin	0.092	-0.644
Tcell	0.254	-0.111
GMCSF	0.106	-0.528
IFNab	-0.184	-0.91
IFNg	-0.136	-1.28
IFNg_GMCSF1	-0.063	-0.305
Rv1432_day32	0.658	0.343
Rv1565c_day32	1.054	0.253
secA2_input	0.734	-0.437
delta_Rv3594	0.165	0.395
delta_Rv3717	1.187	0.257
delta_Rv3811	0.745	0.031
delta_Rv0954	0.933	0.72
PonA1	-0.591	0.128
EccD1_KO	1.885	0.658
EspI_KO	1.6	0.456
PE35_KO	1.671	0.939
PPE68_KO	2.451	0.761
glycerol2	-0.719	-0.566
lignocerate	-0.865	-0.252
oleate	-0.293	-0.313
phosphatidylcholine	-0.629	-0.115
acetate	-0.547	-0.411
glucAc	-0.572	-0.255
Rv0950ko	0.859	-0.211
Rv1096ko	1.517	-0.211
Rv3684ko	0.933	-0.783
delta_otsA_trehalose	-0.873	-0.926