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 Rv1518/-

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

	Rv1955/higB	Rv1518/-
Fe_supp_jason_reseq	0.178	-1.067
low_pH_jason_reseq	1.099	-0.863
NO_jason_reseq	0.213	-0.389
B6_jason_reseq	0.985	-0.836
MHCII_jason_reseq	-0.776	-0.899
Isoniazid02	0.135	0.291
Rifampicin4	-0.577	-0.127
Ethambutol3	2.984	2.766
Meropenem3	-0.007	0.018
Vancomycin16	-0.08	-0.167
Rv2680_day32	0.567	2.448
H37Rv_KO_MarP	-0.268	0.6
hypoxia_3wks	-0.55	0.475
hypoxia_6wks	0.775	0.436
glycerol	-0.575	-0.42
cholesterol	-0.782	0.709
AJ	0.027	-0.138
Bibs02	0.503	1.143
Bibs02c	0.75	0.061
BL6	0.802	0.668
BL6a	1.218	1.058
BXD01	0.88	1.24
BXD010	0.917	0.983
BXD011	0.963	1.104
BXD03	0.321	1.056
BXD04	0.374	2.289
BXD05	0.854	1.479
BXD06	1.399	0.967
BXD07	1.252	0.574
BXD08	0.759	0.963
BXD09	1.111	1.559
CAST	0.414	0.399
CCcont	0.305	1.176
DS01	0.303	0.578
DS02	0.455	-0.531
DS04	1.583	-0.028
DS0c	-0.44	-0.376
GP01	-0.179	0.701
GP02	1.142	0.486
GP0c	0.358	0.551
NOD	0.708	2.044
NZO	0.764	1.585
PWK	1.12	1.435
H37Rv_KO_CtpC	0.9	1.257
H37Rv_KO_CtpD	0.394	-0.177
H37Rv_KO_Rv1272	1.515	1.177
H37Rv_KO_SugABC	-1.282	0.122
H37Rv_KO_MbtN	0.488	0.805
Trans05	1.807	1.282
macrophage_unactivated	1.493	0.073
IL1	1.142	0.386
Rapamycin	0.19	0.0
Tcell	0.678	0.492
GMCSF	1.964	1.043
IFNab	0.683	0.457
IFNg	0.684	1.125
IFNg_GMCSF1	0.984	0.632
Rv1432_day32	-1.317	-0.919
Rv1565c_day32	-0.37	0.0
secA2_input	0.421	-0.642
delta_Rv3594	0.234	0.968
delta_Rv3717	0.33	0.482
delta_Rv3811	0.321	0.473
delta_Rv0954	0.464	0.229
PonA1	-0.028	-1.502
EccD1_KO	-0.654	0.418
EspI_KO	0.519	0.405
PE35_KO	0.155	1.283
PPE68_KO	0.403	0.781
glycerol2	-0.579	0.674
lignocerate	0.424	0.7
oleate	-0.638	1.524
phosphatidylcholine	-0.336	0.634
acetate	-0.229	-0.254
glucAc	-0.014	0.068
Rv0950ko	-0.066	-0.069
Rv1096ko	0.0	-0.244
Rv3684ko	-1.136	-0.589
delta_otsA_trehalose	-0.195	-0.206