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 Rv0915c/PPE14

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

	Rv3699/-	Rv0915c/PPE14
Fe_supp_jason_reseq	0.339	-0.368
low_pH_jason_reseq	-0.085	-0.748
NO_jason_reseq	-1.047	-0.444
B6_jason_reseq	0.316	-0.691
MHCII_jason_reseq	0.196	-0.474
Isoniazid02	0.697	-0.015
Rifampicin4	-0.041	-0.265
Ethambutol3	0.169	-0.083
Meropenem3	0.303	0.474
Vancomycin16	0.297	0.313
Rv2680_day32	0.494	-0.483
H37Rv_KO_MarP	0.188	0.241
hypoxia_3wks	-0.084	-0.682
hypoxia_6wks	-0.679	-0.737
glycerol	-0.925	-0.272
cholesterol	-0.247	-0.114
AJ	-0.247	0.346
Bibs02	-0.021	0.476
Bibs02c	1.088	1.481
BL6	0.607	-0.433
BL6a	1.045	1.01
BXD01	0.058	0.389
BXD010	0.385	-0.101
BXD011	0.446	-0.286
BXD03	1.211	0.141
BXD04	0.157	1.234
BXD05	0.555	0.359
BXD06	0.259	-0.286
BXD07	0.404	0.295
BXD08	-0.125	-0.034
BXD09	0.435	-0.073
CAST	-0.454	-0.245
CCcont	0.797	0.144
DS01	0.546	-0.144
DS02	0.83	0.551
DS04	-1.258	0.29
DS0c	0.633	0.291
GP01	0.095	0.958
GP02	0.835	1.231
GP0c	0.19	0.551
NOD	-0.324	0.368
NZO	-0.068	-0.121
PWK	-0.496	-0.401
H37Rv_KO_CtpC	0.222	0.546
H37Rv_KO_CtpD	-0.028	-0.439
H37Rv_KO_Rv1272	0.705	1.12
H37Rv_KO_SugABC	0.706	-0.622
H37Rv_KO_MbtN	-0.508	-0.1
Trans05	0.578	0.064
macrophage_unactivated	0.066	0.208
IL1	-0.35	0.442
Rapamycin	-0.224	0.0
Tcell	-0.945	0.0
GMCSF	-0.523	0.496
IFNab	0.29	0.033
IFNg	-0.508	0.203
IFNg_GMCSF1	0.742	0.531
Rv1432_day32	0.673	0.163
Rv1565c_day32	-0.09	-0.663
secA2_input	-0.473	0.031
delta_Rv3594	0.236	-0.366
delta_Rv3717	-0.495	-0.42
delta_Rv3811	0.07	-0.593
delta_Rv0954	-0.508	-1.358
PonA1	-0.237	-0.481
EccD1_KO	0.355	0.217
EspI_KO	0.57	0.134
PE35_KO	0.933	0.697
PPE68_KO	1.075	0.841
glycerol2	-0.128	0.154
lignocerate	-0.061	0.341
oleate	0.095	0.064
phosphatidylcholine	-0.325	0.339
acetate	0.201	0.218
glucAc	-0.115	0.114
Rv0950ko	0.286	-0.154
Rv1096ko	0.579	0.042
Rv3684ko	0.95	0.553
delta_otsA_trehalose	0.546	0.139