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 Rv3699/-:

update plot	correlation	link to info on gene
Rv3232c/ppk2	(cc=0.4829)	info on Rv3232c/ppk2
Rv3885c/eccE2	(cc=0.4714)	info on Rv3885c/eccE2
Rv0786c/-	(cc=0.4527)	info on Rv0786c/-
Rv0028/-	(cc=0.4235)	info on Rv0028/-
Rv2481c/-	(cc=0.4135)	info on Rv2481c/-
Rv1116/-	(cc=0.4055)	info on Rv1116/-
Rv3143/-	(cc=0.4031)	info on Rv3143/-
Rv3071/-	(cc=0.3988)	info on Rv3071/-
Rv0915c/PPE14	(cc=0.3905)	info on Rv0915c/PPE14
Rv1665/pks11	(cc=0.385)	info on Rv1665/pks11

Correlation of Rv3699/- with Rv1665/pks11

Normalized LFCs for Rv3699/-:
(description and provenance of datasets)

	Rv3699/-	Rv1665/pks11
Fe_supp_jason_reseq	0.339	1.503
low_pH_jason_reseq	-0.085	-0.249
NO_jason_reseq	-1.047	-0.929
B6_jason_reseq	0.316	-0.944
MHCII_jason_reseq	0.196	-0.725
Isoniazid02	0.697	2.082
Rifampicin4	-0.041	1.034
Ethambutol3	0.169	1.189
Meropenem3	0.303	2.288
Vancomycin16	0.297	1.777
Rv2680_day32	0.494	0.075
H37Rv_KO_MarP	0.188	0.861
hypoxia_3wks	-0.084	0.63
hypoxia_6wks	-0.679	-0.524
glycerol	-0.925	-1.147
cholesterol	-0.247	0.118
AJ	-0.247	-1.062
Bibs02	-0.021	0.389
Bibs02c	1.088	1.444
BL6	0.607	0.412
BL6a	1.045	1.857
BXD01	0.058	0.743
BXD010	0.385	0.816
BXD011	0.446	0.89
BXD03	1.211	0.618
BXD04	0.157	0.926
BXD05	0.555	0.881
BXD06	0.259	0.812
BXD07	0.404	1.071
BXD08	-0.125	1.411
BXD09	0.435	0.958
CAST	-0.454	-1.592
CCcont	0.797	0.565
DS01	0.546	-0.039
DS02	0.83	0.072
DS04	-1.258	0.663
DS0c	0.633	0.52
GP01	0.095	-0.124
GP02	0.835	2.023
GP0c	0.19	0.259
NOD	-0.324	-0.971
NZO	-0.068	-0.967
PWK	-0.496	-0.568
H37Rv_KO_CtpC	0.222	0.594
H37Rv_KO_CtpD	-0.028	0.27
H37Rv_KO_Rv1272	0.705	1.643
H37Rv_KO_SugABC	0.706	2.017
H37Rv_KO_MbtN	-0.508	1.288
Trans05	0.578	1.336
macrophage_unactivated	0.066	1.146
IL1	-0.35	1.16
Rapamycin	-0.224	0.516
Tcell	-0.945	0.573
GMCSF	-0.523	-0.391
IFNab	0.29	1.007
IFNg	-0.508	1.008
IFNg_GMCSF1	0.742	-0.151
Rv1432_day32	0.673	0.336
Rv1565c_day32	-0.09	0.905
secA2_input	-0.473	-1.558
delta_Rv3594	0.236	0.508
delta_Rv3717	-0.495	0.138
delta_Rv3811	0.07	0.681
delta_Rv0954	-0.508	0.602
PonA1	-0.237	0.224
EccD1_KO	0.355	0.388
EspI_KO	0.57	0.451
PE35_KO	0.933	0.575
PPE68_KO	1.075	1.053
glycerol2	-0.128	-0.673
lignocerate	-0.061	-0.475
oleate	0.095	0.635
phosphatidylcholine	-0.325	-0.577
acetate	0.201	-0.595
glucAc	-0.115	-1.008
Rv0950ko	0.286	-0.835
Rv1096ko	0.579	-0.118
Rv3684ko	0.95	-1.598
delta_otsA_trehalose	0.546	1.483