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 Rv2797c/-

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

	Rv2618/-	Rv2797c/-
Fe_supp_jason_reseq	-1.361	-0.38
low_pH_jason_reseq	0.0	-1.114
NO_jason_reseq	-1.097	-0.289
B6_jason_reseq	-1.279	-0.538
MHCII_jason_reseq	0.397	0.394
Isoniazid02	0.934	0.146
Rifampicin4	0.401	-0.179
Ethambutol3	0.67	0.315
Meropenem3	0.791	0.0
Vancomycin16	0.143	0.151
Rv2680_day32	0.701	0.947
H37Rv_KO_MarP	0.128	0.302
hypoxia_3wks	2.277	1.619
hypoxia_6wks	3.328	1.608
glycerol	-0.379	0.439
cholesterol	0.331	0.163
AJ	-0.308	0.565
Bibs02	0.784	0.114
Bibs02c	0.388	0.226
BL6	0.68	0.532
BL6a	0.626	0.475
BXD01	1.019	0.189
BXD010	0.567	0.165
BXD011	1.197	0.112
BXD03	0.402	0.391
BXD04	1.162	0.941
BXD05	1.236	0.303
BXD06	1.161	0.467
BXD07	0.948	0.405
BXD08	0.939	0.16
BXD09	0.737	0.366
CAST	-0.187	0.601
CCcont	0.534	-0.077
DS01	0.364	0.667
DS02	1.078	0.545
DS04	1.072	0.759
DS0c	0.877	0.464
GP01	0.874	0.843
GP02	-0.237	0.603
GP0c	0.624	0.626
NOD	-0.285	0.618
NZO	-0.639	0.419
PWK	0.185	0.834
H37Rv_KO_CtpC	-0.285	0.61
H37Rv_KO_CtpD	0.535	0.242
H37Rv_KO_Rv1272	-0.412	-0.252
H37Rv_KO_SugABC	-0.723	0.273
H37Rv_KO_MbtN	0.293	-0.321
Trans05	-0.158	0.299
macrophage_unactivated	0.59	-0.155
IL1	0.543	0.43
Rapamycin	-0.448	0.187
Tcell	0.472	0.124
GMCSF	0.18	-0.222
IFNab	1.515	0.157
IFNg	-0.013	0.259
IFNg_GMCSF1	0.145	0.016
Rv1432_day32	1.461	-0.19
Rv1565c_day32	-1.109	-0.182
secA2_input	0.013	0.07
delta_Rv3594	0.684	0.135
delta_Rv3717	0.987	-0.053
delta_Rv3811	0.58	0.061
delta_Rv0954	0.752	0.291
PonA1	0.713	0.756
EccD1_KO	0.48	0.22
EspI_KO	0.288	-0.183
PE35_KO	-0.02	-0.239
PPE68_KO	-0.23	-0.518
glycerol2	1.9	-0.035
lignocerate	-1.29	-0.016
oleate	1.418	0.179
phosphatidylcholine	-1.172	0.069
acetate	0.0	-0.598
glucAc	-0.333	-0.585
Rv0950ko	0.308	0.781
Rv1096ko	0.0	0.576
Rv3684ko	-0.406	0.455
delta_otsA_trehalose	-1.145	0.295