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 Rv0317c/glpQ2:

update plot	correlation	link to info on gene
Rv3704c/gshA	(cc=0.5387)	info on Rv3704c/gshA
Rv3507/PE_PGRS53	(cc=0.5358)	info on Rv3507/PE_PGRS53
Rv1770/-	(cc=0.47)	info on Rv1770/-
Rv2066/cobI	(cc=0.4696)	info on Rv2066/cobI
Rv2924c/fpg	(cc=0.4626)	info on Rv2924c/fpg
Rv3483c/-	(cc=0.4625)	info on Rv3483c/-
Rv1413/-	(cc=0.4563)	info on Rv1413/-
Rv1761c/-	(cc=0.4477)	info on Rv1761c/-
Rv3294c/-	(cc=0.4454)	info on Rv3294c/-
Rv0281/-	(cc=0.4425)	info on Rv0281/-

Correlation of Rv0317c/glpQ2 with Rv3483c/-

Normalized LFCs for Rv0317c/glpQ2:
(description and provenance of datasets)

	Rv0317c/glpQ2	Rv3483c/-
Fe_supp_jason_reseq	-0.726	1.085
low_pH_jason_reseq	-1.099	-0.341
NO_jason_reseq	-0.822	-0.488
B6_jason_reseq	-0.272	-0.514
MHCII_jason_reseq	0.263	-0.697
Isoniazid02	0.221	1.433
Rifampicin4	0.766	-0.187
Ethambutol3	0.055	1.747
Meropenem3	0.604	3.141
Vancomycin16	0.178	0.252
Rv2680_day32	0.034	-0.025
H37Rv_KO_MarP	0.724	-0.048
hypoxia_3wks	0.841	0.044
hypoxia_6wks	0.117	-0.157
glycerol	0.334	0.317
cholesterol	0.59	0.289
AJ	-0.541	-0.373
Bibs02	0.466	0.371
Bibs02c	-0.218	-0.42
BL6	-0.521	0.031
BL6a	-0.197	-0.339
BXD01	-0.581	-0.428
BXD010	-0.572	0.56
BXD011	-0.353	0.026
BXD03	-0.35	0.154
BXD04	-0.61	0.056
BXD05	-0.186	0.178
BXD06	-0.415	-0.516
BXD07	-0.2	-0.171
BXD08	0.077	-0.974
BXD09	-0.437	-0.253
CAST	-0.439	-0.891
CCcont	-0.749	-0.051
DS01	-0.38	0.628
DS02	0.206	0.419
DS04	0.271	-0.342
DS0c	0.377	0.173
GP01	1.097	0.512
GP02	2.108	0.699
GP0c	0.48	0.312
NOD	0.519	0.055
NZO	-0.465	-0.896
PWK	-0.787	-0.807
H37Rv_KO_CtpC	0.47	0.273
H37Rv_KO_CtpD	0.226	1.786
H37Rv_KO_Rv1272	-0.269	-0.363
H37Rv_KO_SugABC	-0.39	-0.204
H37Rv_KO_MbtN	0.744	-0.713
Trans05	0.275	0.468
macrophage_unactivated	0.199	0.884
IL1	0.857	1.332
Rapamycin	0.77	1.415
Tcell	0.29	0.303
GMCSF	-0.198	0.692
IFNab	0.054	0.472
IFNg	-0.2	0.235
IFNg_GMCSF1	-0.267	0.581
Rv1432_day32	-0.345	-0.494
Rv1565c_day32	-0.313	0.586
secA2_input	0.1	0.529
delta_Rv3594	0.116	-0.246
delta_Rv3717	0.021	-0.385
delta_Rv3811	0.064	-0.694
delta_Rv0954	0.221	0.663
PonA1	0.284	0.469
EccD1_KO	-0.862	-0.602
EspI_KO	-0.804	-0.337
PE35_KO	-0.983	-1.21
PPE68_KO	-1.552	-0.95
glycerol2	0.129	-0.198
lignocerate	0.023	0.163
oleate	-0.027	0.6
phosphatidylcholine	0.19	0.367
acetate	0.168	-0.442
glucAc	0.02	-0.425
Rv0950ko	0.766	1.285
Rv1096ko	0.072	1.01
Rv3684ko	-0.026	-0.246
delta_otsA_trehalose	2.255	1.284