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 Rv1336/cysM

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

	Rv2618/-	Rv1336/cysM
Fe_supp_jason_reseq	-1.361	0.199
low_pH_jason_reseq	0.0	0.831
NO_jason_reseq	-1.097	1.113
B6_jason_reseq	-1.279	0.705
MHCII_jason_reseq	0.397	-0.079
Isoniazid02	0.934	1.385
Rifampicin4	0.401	0.076
Ethambutol3	0.67	-0.593
Meropenem3	0.791	0.628
Vancomycin16	0.143	0.666
Rv2680_day32	0.701	0.675
H37Rv_KO_MarP	0.128	-0.425
hypoxia_3wks	2.277	2.213
hypoxia_6wks	3.328	4.042
glycerol	-0.379	-0.967
cholesterol	0.331	0.048
AJ	-0.308	-1.56
Bibs02	0.784	-1.444
Bibs02c	0.388	-1.203
BL6	0.68	1.43
BL6a	0.626	1.05
BXD01	1.019	2.221
BXD010	0.567	1.974
BXD011	1.197	3.102
BXD03	0.402	1.156
BXD04	1.162	1.994
BXD05	1.236	1.724
BXD06	1.161	2.328
BXD07	0.948	2.6
BXD08	0.939	2.71
BXD09	0.737	1.771
CAST	-0.187	-0.594
CCcont	0.534	0.248
DS01	0.364	-1.632
DS02	1.078	-1.306
DS04	1.072	-0.136
DS0c	0.877	-1.194
GP01	0.874	1.134
GP02	-0.237	0.251
GP0c	0.624	1.595
NOD	-0.285	-1.128
NZO	-0.639	0.23
PWK	0.185	-0.469
H37Rv_KO_CtpC	-0.285	-0.578
H37Rv_KO_CtpD	0.535	0.006
H37Rv_KO_Rv1272	-0.412	1.298
H37Rv_KO_SugABC	-0.723	0.836
H37Rv_KO_MbtN	0.293	2.209
Trans05	-0.158	1.733
macrophage_unactivated	0.59	-2.061
IL1	0.543	-0.163
Rapamycin	-0.448	-0.915
Tcell	0.472	0.29
GMCSF	0.18	-1.428
IFNab	1.515	0.115
IFNg	-0.013	-0.901
IFNg_GMCSF1	0.145	-1.024
Rv1432_day32	1.461	0.846
Rv1565c_day32	-1.109	-1.439
secA2_input	0.013	0.227
delta_Rv3594	0.684	0.858
delta_Rv3717	0.987	2.129
delta_Rv3811	0.58	1.103
delta_Rv0954	0.752	-0.291
PonA1	0.713	-0.995
EccD1_KO	0.48	0.22
EspI_KO	0.288	0.088
PE35_KO	-0.02	-0.715
PPE68_KO	-0.23	0.016
glycerol2	1.9	-0.206
lignocerate	-1.29	-2.133
oleate	1.418	2.606
phosphatidylcholine	-1.172	-1.732
acetate	0.0	-0.073
glucAc	-0.333	-0.255
Rv0950ko	0.308	-0.633
Rv1096ko	0.0	-0.305
Rv3684ko	-0.406	0.308
delta_otsA_trehalose	-1.145	-0.053