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 Rv0804/-:

update plot	correlation	link to info on gene
Rv2852c/mqo	(cc=0.4915)	info on Rv2852c/mqo
Rv1336/cysM	(cc=0.4614)	info on Rv1336/cysM
Rv0131c/fadE1	(cc=0.4569)	info on Rv0131c/fadE1
Rv2970c/lipN	(cc=0.4391)	info on Rv2970c/lipN
Rv3033/-	(cc=0.4344)	info on Rv3033/-
Rv1334/mec	(cc=0.4211)	info on Rv1334/mec
Rv2618/-	(cc=0.417)	info on Rv2618/-
Rv2450c/rpfE	(cc=0.4155)	info on Rv2450c/rpfE
Rv0695/-	(cc=0.3842)	info on Rv0695/-
Rv1666c/cyp139	(cc=0.3822)	info on Rv1666c/cyp139

Correlation of Rv0804/- with Rv2618/-

Normalized LFCs for Rv0804/-:
(description and provenance of datasets)

	Rv0804/-	Rv2618/-
Fe_supp_jason_reseq	-2.502	-1.361
low_pH_jason_reseq	1.019	0.0
NO_jason_reseq	-0.42	-1.097
B6_jason_reseq	1.095	-1.279
MHCII_jason_reseq	-0.108	0.397
Isoniazid02	-0.39	0.934
Rifampicin4	-0.149	0.401
Ethambutol3	-0.137	0.67
Meropenem3	0.032	0.791
Vancomycin16	0.377	0.143
Rv2680_day32	1.871	0.701
H37Rv_KO_MarP	0.109	0.128
hypoxia_3wks	1.575	2.277
hypoxia_6wks	2.007	3.328
glycerol	0.897	-0.379
cholesterol	0.069	0.331
AJ	-0.805	-0.308
Bibs02	0.172	0.784
Bibs02c	-0.409	0.388
BL6	0.694	0.68
BL6a	0.274	0.626
BXD01	0.578	1.019
BXD010	0.516	0.567
BXD011	0.414	1.197
BXD03	0.584	0.402
BXD04	0.28	1.162
BXD05	0.284	1.236
BXD06	0.213	1.161
BXD07	0.842	0.948
BXD08	0.988	0.939
BXD09	0.418	0.737
CAST	-0.417	-0.187
CCcont	-0.544	0.534
DS01	-0.392	0.364
DS02	-0.195	1.078
DS04	0.715	1.072
DS0c	-0.225	0.877
GP01	-1.756	0.874
GP02	-1.818	-0.237
GP0c	-1.077	0.624
NOD	-0.76	-0.285
NZO	-0.126	-0.639
PWK	-0.099	0.185
H37Rv_KO_CtpC	-0.884	-0.285
H37Rv_KO_CtpD	-0.375	0.535
H37Rv_KO_Rv1272	-0.407	-0.412
H37Rv_KO_SugABC	0.137	-0.723
H37Rv_KO_MbtN	0.316	0.293
Trans05	0.282	-0.158
macrophage_unactivated	-1.588	0.59
IL1	0.537	0.543
Rapamycin	-0.371	-0.448
Tcell	-0.45	0.472
GMCSF	-0.341	0.18
IFNab	0.07	1.515
IFNg	-0.021	-0.013
IFNg_GMCSF1	0.327	0.145
Rv1432_day32	1.16	1.461
Rv1565c_day32	-1.749	-1.109
secA2_input	0.368	0.013
delta_Rv3594	-0.84	0.684
delta_Rv3717	0.609	0.987
delta_Rv3811	-0.538	0.58
delta_Rv0954	-1.107	0.752
PonA1	-1.146	0.713
EccD1_KO	0.724	0.48
EspI_KO	0.876	0.288
PE35_KO	0.242	-0.02
PPE68_KO	0.208	-0.23
glycerol2	-0.032	1.9
lignocerate	-0.555	-1.29
oleate	1.46	1.418
phosphatidylcholine	-0.294	-1.172
acetate	0.575	0.0
glucAc	-1.382	-0.333
Rv0950ko	0.519	0.308
Rv1096ko	0.688	0.0
Rv3684ko	0.147	-0.406
delta_otsA_trehalose	0.17	-1.145