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 Rv0786c/-

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

	Rv3699/-	Rv0786c/-
Fe_supp_jason_reseq	0.339	-1.613
low_pH_jason_reseq	-0.085	-2.324
NO_jason_reseq	-1.047	-0.551
B6_jason_reseq	0.316	-0.421
MHCII_jason_reseq	0.196	-0.915
Isoniazid02	0.697	2.402
Rifampicin4	-0.041	-0.046
Ethambutol3	0.169	1.246
Meropenem3	0.303	0.174
Vancomycin16	0.297	0.772
Rv2680_day32	0.494	1.081
H37Rv_KO_MarP	0.188	-0.879
hypoxia_3wks	-0.084	-0.367
hypoxia_6wks	-0.679	-0.127
glycerol	-0.925	-0.358
cholesterol	-0.247	-0.914
AJ	-0.247	-0.881
Bibs02	-0.021	-0.172
Bibs02c	1.088	1.623
BL6	0.607	0.57
BL6a	1.045	1.025
BXD01	0.058	0.073
BXD010	0.385	-0.789
BXD011	0.446	-0.439
BXD03	1.211	0.458
BXD04	0.157	0.134
BXD05	0.555	0.986
BXD06	0.259	0.453
BXD07	0.404	0.201
BXD08	-0.125	0.011
BXD09	0.435	0.382
CAST	-0.454	-0.155
CCcont	0.797	-0.025
DS01	0.546	1.542
DS02	0.83	1.221
DS04	-1.258	0.769
DS0c	0.633	0.823
GP01	0.095	0.129
GP02	0.835	1.816
GP0c	0.19	-0.054
NOD	-0.324	-0.724
NZO	-0.068	-1.114
PWK	-0.496	1.091
H37Rv_KO_CtpC	0.222	-0.419
H37Rv_KO_CtpD	-0.028	-0.69
H37Rv_KO_Rv1272	0.705	-0.145
H37Rv_KO_SugABC	0.706	1.429
H37Rv_KO_MbtN	-0.508	-0.764
Trans05	0.578	0.33
macrophage_unactivated	0.066	-1.433
IL1	-0.35	-0.664
Rapamycin	-0.224	-0.868
Tcell	-0.945	-0.857
GMCSF	-0.523	0.129
IFNab	0.29	-0.704
IFNg	-0.508	-0.893
IFNg_GMCSF1	0.742	0.515
Rv1432_day32	0.673	0.254
Rv1565c_day32	-0.09	0.539
secA2_input	-0.473	0.404
delta_Rv3594	0.236	0.35
delta_Rv3717	-0.495	-1.005
delta_Rv3811	0.07	-0.18
delta_Rv0954	-0.508	0.021
PonA1	-0.237	-1.025
EccD1_KO	0.355	1.924
EspI_KO	0.57	1.263
PE35_KO	0.933	-0.055
PPE68_KO	1.075	0.397
glycerol2	-0.128	-0.509
lignocerate	-0.061	0.431
oleate	0.095	-0.614
phosphatidylcholine	-0.325	-0.368
acetate	0.201	0.622
glucAc	-0.115	1.075
Rv0950ko	0.286	-0.338
Rv1096ko	0.579	1.975
Rv3684ko	0.95	0.196
delta_otsA_trehalose	0.546	1.337