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 Rv2852c/mqo

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

	Rv0804/-	Rv2852c/mqo
Fe_supp_jason_reseq	-2.502	-0.125
low_pH_jason_reseq	1.019	0.36
NO_jason_reseq	-0.42	0.024
B6_jason_reseq	1.095	0.446
MHCII_jason_reseq	-0.108	0.674
Isoniazid02	-0.39	0.195
Rifampicin4	-0.149	-0.301
Ethambutol3	-0.137	-0.247
Meropenem3	0.032	0.077
Vancomycin16	0.377	-0.088
Rv2680_day32	1.871	2.077
H37Rv_KO_MarP	0.109	0.339
hypoxia_3wks	1.575	1.471
hypoxia_6wks	2.007	0.858
glycerol	0.897	-0.958
cholesterol	0.069	-0.426
AJ	-0.805	-0.092
Bibs02	0.172	-0.46
Bibs02c	-0.409	-0.112
BL6	0.694	0.813
BL6a	0.274	0.443
BXD01	0.578	1.043
BXD010	0.516	0.573
BXD011	0.414	0.48
BXD03	0.584	0.564
BXD04	0.28	0.59
BXD05	0.284	0.456
BXD06	0.213	0.434
BXD07	0.842	0.787
BXD08	0.988	1.354
BXD09	0.418	0.815
CAST	-0.417	-0.43
CCcont	-0.544	0.029
DS01	-0.392	0.121
DS02	-0.195	0.521
DS04	0.715	0.774
DS0c	-0.225	0.641
GP01	-1.756	-1.35
GP02	-1.818	-1.316
GP0c	-1.077	-0.305
NOD	-0.76	-0.075
NZO	-0.126	1.231
PWK	-0.099	0.429
H37Rv_KO_CtpC	-0.884	0.084
H37Rv_KO_CtpD	-0.375	0.72
H37Rv_KO_Rv1272	-0.407	1.18
H37Rv_KO_SugABC	0.137	1.38
H37Rv_KO_MbtN	0.316	0.152
Trans05	0.282	0.84
macrophage_unactivated	-1.588	-0.568
IL1	0.537	0.575
Rapamycin	-0.371	0.816
Tcell	-0.45	0.0
GMCSF	-0.341	-0.158
IFNab	0.07	-1.376
IFNg	-0.021	1.906
IFNg_GMCSF1	0.327	1.147
Rv1432_day32	1.16	1.435
Rv1565c_day32	-1.749	-0.374
secA2_input	0.368	-0.297
delta_Rv3594	-0.84	-0.075
delta_Rv3717	0.609	-0.408
delta_Rv3811	-0.538	-0.547
delta_Rv0954	-1.107	-0.694
PonA1	-1.146	-1.211
EccD1_KO	0.724	-0.523
EspI_KO	0.876	-0.485
PE35_KO	0.242	0.254
PPE68_KO	0.208	-0.032
glycerol2	-0.032	0.597
lignocerate	-0.555	-0.065
oleate	1.46	0.846
phosphatidylcholine	-0.294	0.437
acetate	0.575	-0.386
glucAc	-1.382	0.647
Rv0950ko	0.519	0.121
Rv1096ko	0.688	0.332
Rv3684ko	0.147	0.603
delta_otsA_trehalose	0.17	-1.04