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 Rv1955/higB:

update plot	correlation	link to info on gene
Rv1502/-	(cc=0.4896)	info on Rv1502/-
Rv1518/-	(cc=0.4595)	info on Rv1518/-
Rv0013/trpG	(cc=0.4585)	info on Rv0013/trpG
Rv1561/vapC11	(cc=0.4543)	info on Rv1561/vapC11
Rv2970A/-	(cc=0.4527)	info on Rv2970A/-
Rv0823c/-	(cc=0.4511)	info on Rv0823c/-
Rv2655c/-	(cc=0.4447)	info on Rv2655c/-
Rv0112/gca	(cc=0.4408)	info on Rv0112/gca
Rv0246/-	(cc=0.4364)	info on Rv0246/-
Rv1729c/-	(cc=0.4361)	info on Rv1729c/-

Correlation of Rv1955/higB with Rv2655c/-

Normalized LFCs for Rv1955/higB:
(description and provenance of datasets)

	Rv1955/higB	Rv2655c/-
Fe_supp_jason_reseq	0.178	-0.665
low_pH_jason_reseq	1.099	1.641
NO_jason_reseq	0.213	1.717
B6_jason_reseq	0.985	0.868
MHCII_jason_reseq	-0.776	-0.526
Isoniazid02	0.135	-0.054
Rifampicin4	-0.577	0.065
Ethambutol3	2.984	1.524
Meropenem3	-0.007	0.767
Vancomycin16	-0.08	0.032
Rv2680_day32	0.567	0.131
H37Rv_KO_MarP	-0.268	0.141
hypoxia_3wks	-0.55	-0.901
hypoxia_6wks	0.775	0.409
glycerol	-0.575	-0.268
cholesterol	-0.782	0.171
AJ	0.027	0.647
Bibs02	0.503	0.111
Bibs02c	0.75	-0.135
BL6	0.802	0.28
BL6a	1.218	0.456
BXD01	0.88	0.735
BXD010	0.917	0.791
BXD011	0.963	1.682
BXD03	0.321	0.661
BXD04	0.374	-0.209
BXD05	0.854	0.748
BXD06	1.399	0.772
BXD07	1.252	1.172
BXD08	0.759	1.129
BXD09	1.111	0.781
CAST	0.414	1.3
CCcont	0.305	-0.785
DS01	0.303	0.544
DS02	0.455	0.487
DS04	1.583	-0.364
DS0c	-0.44	-0.195
GP01	-0.179	0.157
GP02	1.142	0.619
GP0c	0.358	0.216
NOD	0.708	1.217
NZO	0.764	1.062
PWK	1.12	2.322
H37Rv_KO_CtpC	0.9	0.225
H37Rv_KO_CtpD	0.394	-0.651
H37Rv_KO_Rv1272	1.515	0.176
H37Rv_KO_SugABC	-1.282	-0.032
H37Rv_KO_MbtN	0.488	0.927
Trans05	1.807	1.608
macrophage_unactivated	1.493	-1.023
IL1	1.142	-0.486
Rapamycin	0.19	-0.743
Tcell	0.678	-0.362
GMCSF	1.964	-0.349
IFNab	0.683	-0.732
IFNg	0.684	-0.184
IFNg_GMCSF1	0.984	-0.217
Rv1432_day32	-1.317	-0.588
Rv1565c_day32	-0.37	-0.607
secA2_input	0.421	1.241
delta_Rv3594	0.234	-0.24
delta_Rv3717	0.33	0.247
delta_Rv3811	0.321	0.138
delta_Rv0954	0.464	-0.548
PonA1	-0.028	-0.615
EccD1_KO	-0.654	-0.987
EspI_KO	0.519	0.145
PE35_KO	0.155	-0.648
PPE68_KO	0.403	0.32
glycerol2	-0.579	-1.527
lignocerate	0.424	-1.803
oleate	-0.638	-0.922
phosphatidylcholine	-0.336	-1.527
acetate	-0.229	-1.765
glucAc	-0.014	-1.717
Rv0950ko	-0.066	-0.178
Rv1096ko	0.0	-0.404
Rv3684ko	-1.136	-0.193
delta_otsA_trehalose	-0.195	1.027