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 Rv1303/-:

update plot	correlation	link to info on gene
Rv3847/-	(cc=0.5049)	info on Rv3847/-
Rv3855/ethR	(cc=0.4988)	info on Rv3855/ethR
Rv2695/-	(cc=0.489)	info on Rv2695/-
Rv1756c/-	(cc=0.4865)	info on Rv1756c/-
Rv1752/-	(cc=0.4831)	info on Rv1752/-
Rv2807/-	(cc=0.4791)	info on Rv2807/-
Rv0989c/grcC2	(cc=0.4785)	info on Rv0989c/grcC2
Rv2543/lppA	(cc=0.4706)	info on Rv2543/lppA
Rv0003/recF	(cc=0.4619)	info on Rv0003/recF
Rv0820/phoT	(cc=0.4582)	info on Rv0820/phoT

Correlation of Rv1303/- with Rv3847/-

Normalized LFCs for Rv1303/-:
(description and provenance of datasets)

	Rv1303/-	Rv3847/-
Fe_supp_jason_reseq	2.278	-1.283
low_pH_jason_reseq	-1.829	-1.673
NO_jason_reseq	-2.179	0.215
B6_jason_reseq	0.867	-0.746
MHCII_jason_reseq	-1.64	-1.827
Isoniazid02	-0.528	0.992
Rifampicin4	0.412	0.138
Ethambutol3	-0.135	0.615
Meropenem3	-0.799	0.35
Vancomycin16	0.65	-0.236
Rv2680_day32	0.0	1.596
H37Rv_KO_MarP	1.705	0.429
hypoxia_3wks	0.0	0.881
hypoxia_6wks	1.284	0.549
glycerol	1.208	-1.113
cholesterol	0.253	-1.049
AJ	-0.356	0.881
Bibs02	3.11	-0.55
Bibs02c	-1.516	-1.153
BL6	1.812	0.807
BL6a	1.97	0.933
BXD01	0.278	0.341
BXD010	0.459	0.433
BXD011	1.735	0.806
BXD03	1.595	1.687
BXD04	0.057	0.864
BXD05	0.288	1.836
BXD06	2.561	0.948
BXD07	1.715	1.003
BXD08	1.371	0.93
BXD09	1.968	1.398
CAST	2.533	0.177
CCcont	0.725	0.465
DS01	0.216	0.084
DS02	-1.027	0.457
DS04	1.359	0.288
DS0c	1.571	0.745
GP01	5.083	3.22
GP02	1.725	0.901
GP0c	3.218	2.008
NOD	0.805	0.818
NZO	-1.644	0.566
PWK	-0.095	1.09
H37Rv_KO_CtpC	1.965	1.546
H37Rv_KO_CtpD	-0.341	0.631
H37Rv_KO_Rv1272	-1.022	0.904
H37Rv_KO_SugABC	-0.718	1.28
H37Rv_KO_MbtN	2.157	0.178
Trans05	-0.947	-0.525
macrophage_unactivated	-0.227	-0.041
IL1	0.581	-0.495
Rapamycin	-0.749	-0.04
Tcell	-0.903	0.169
GMCSF	-1.059	0.124
IFNab	-1.103	0.333
IFNg	0.254	0.858
IFNg_GMCSF1	-1.75	0.839
Rv1432_day32	0.0	0.249
Rv1565c_day32	0.0	-0.112
secA2_input	-2.509	0.72
delta_Rv3594	-1.53	-0.338
delta_Rv3717	-2.76	-1.266
delta_Rv3811	-0.904	-0.494
delta_Rv0954	0.656	0.274
PonA1	-3.091	-0.753
EccD1_KO	2.25	-0.21
EspI_KO	0.471	-0.436
PE35_KO	1.21	-0.799
PPE68_KO	0.528	-0.374
glycerol2	-3.254	-1.31
lignocerate	-2.002	-1.655
oleate	-2.755	-0.737
phosphatidylcholine	-3.059	-1.595
acetate	-0.856	-1.333
glucAc	-1.608	-0.941
Rv0950ko	-0.467	0.44
Rv1096ko	0.552	0.754
Rv3684ko	1.556	0.377
delta_otsA_trehalose	0.0	-0.837