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 Rv2618/-:

update plot	correlation	link to info on gene
Rv1336/cysM	(cc=0.4924)	info on Rv1336/cysM
Rv1334/mec	(cc=0.4764)	info on Rv1334/mec
Rv0476/-	(cc=0.4739)	info on Rv0476/-
Rv3818/-	(cc=0.4569)	info on Rv3818/-
Rv2797c/-	(cc=0.4425)	info on Rv2797c/-
Rv0466/-	(cc=0.4387)	info on Rv0466/-
Rv0161/-	(cc=0.4366)	info on Rv0161/-
Rv3145/nuoA	(cc=0.4346)	info on Rv3145/nuoA
Rv3151/nuoG	(cc=0.4307)	info on Rv3151/nuoG
Rv2946c/pks1	(cc=0.4249)	info on Rv2946c/pks1

Correlation of Rv2618/- with Rv0466/-

Normalized LFCs for Rv2618/-:
(description and provenance of datasets)

	Rv2618/-	Rv0466/-
Fe_supp_jason_reseq	-1.361	-0.219
low_pH_jason_reseq	0.0	0.171
NO_jason_reseq	-1.097	-4.762
B6_jason_reseq	-1.279	-0.107
MHCII_jason_reseq	0.397	0.798
Isoniazid02	0.934	-0.112
Rifampicin4	0.401	-0.265
Ethambutol3	0.67	-0.258
Meropenem3	0.791	0.871
Vancomycin16	0.143	-0.674
Rv2680_day32	0.701	1.01
H37Rv_KO_MarP	0.128	-2.88
hypoxia_3wks	2.277	2.727
hypoxia_6wks	3.328	5.101
glycerol	-0.379	0.051
cholesterol	0.331	0.604
AJ	-0.308	-1.136
Bibs02	0.784	-0.477
Bibs02c	0.388	-1.611
BL6	0.68	1.673
BL6a	0.626	1.435
BXD01	1.019	2.579
BXD010	0.567	0.785
BXD011	1.197	1.976
BXD03	0.402	-0.648
BXD04	1.162	1.332
BXD05	1.236	0.8
BXD06	1.161	1.769
BXD07	0.948	2.508
BXD08	0.939	1.861
BXD09	0.737	2.511
CAST	-0.187	-1.25
CCcont	0.534	1.062
DS01	0.364	-2.868
DS02	1.078	-0.64
DS04	1.072	0.086
DS0c	0.877	0.311
GP01	0.874	1.001
GP02	-0.237	-0.022
GP0c	0.624	-0.197
NOD	-0.285	-0.643
NZO	-0.639	-1.536
PWK	0.185	-4.014
H37Rv_KO_CtpC	-0.285	-0.451
H37Rv_KO_CtpD	0.535	0.643
H37Rv_KO_Rv1272	-0.412	0.287
H37Rv_KO_SugABC	-0.723	1.656
H37Rv_KO_MbtN	0.293	1.439
Trans05	-0.158	1.18
macrophage_unactivated	0.59	0.379
IL1	0.543	-0.196
Rapamycin	-0.448	-0.638
Tcell	0.472	2.597
GMCSF	0.18	-0.628
IFNab	1.515	-0.396
IFNg	-0.013	-1.451
IFNg_GMCSF1	0.145	-0.83
Rv1432_day32	1.461	4.056
Rv1565c_day32	-1.109	2.088
secA2_input	0.013	1.043
delta_Rv3594	0.684	1.023
delta_Rv3717	0.987	2.863
delta_Rv3811	0.58	1.254
delta_Rv0954	0.752	-0.421
PonA1	0.713	-1.885
EccD1_KO	0.48	-0.49
EspI_KO	0.288	0.091
PE35_KO	-0.02	-0.12
PPE68_KO	-0.23	-0.186
glycerol2	1.9	0.563
lignocerate	-1.29	-0.806
oleate	1.418	-2.802
phosphatidylcholine	-1.172	-0.021
acetate	0.0	-0.567
glucAc	-0.333	-0.437
Rv0950ko	0.308	0.157
Rv1096ko	0.0	-1.698
Rv3684ko	-0.406	1.205
delta_otsA_trehalose	-1.145	0.17