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 Rv2929/-:

update plot	correlation	link to info on gene
Rv3429/PPE59	(cc=0.7601)	info on Rv3429/PPE59
Rv3142c/-	(cc=0.6497)	info on Rv3142c/-
Rv1059/-	(cc=0.6291)	info on Rv1059/-
Rv1583c/-	(cc=0.6268)	info on Rv1583c/-
Rv3378c/-	(cc=0.6187)	info on Rv3378c/-
Rv1616/-	(cc=0.6132)	info on Rv1616/-
Rv3383c/idsB	(cc=0.6119)	info on Rv3383c/idsB
Rv1490/-	(cc=0.6051)	info on Rv1490/-
Rv2430c/PPE41	(cc=0.6021)	info on Rv2430c/PPE41
Rv0822c/-	(cc=0.5942)	info on Rv0822c/-

Correlation of Rv2929/- with Rv3383c/idsB

Normalized LFCs for Rv2929/-:
(description and provenance of datasets)

	Rv2929/-	Rv3383c/idsB
Fe_supp_jason_reseq	-0.775	-0.306
low_pH_jason_reseq	0.059	0.714
NO_jason_reseq	1.113	-0.475
B6_jason_reseq	-2.004	-1.521
MHCII_jason_reseq	-2.323	-1.537
Isoniazid02	1.192	-0.323
Rifampicin4	0.054	-0.252
Ethambutol3	1.395	1.086
Meropenem3	0.954	0.258
Vancomycin16	0.355	-0.034
Rv2680_day32	-2.504	-0.478
H37Rv_KO_MarP	-0.373	0.57
hypoxia_3wks	0.072	0.518
hypoxia_6wks	0.013	-0.28
glycerol	-1.194	-1.688
cholesterol	0.171	-1.032
AJ	0.598	-0.383
Bibs02	-1.952	0.334
Bibs02c	0.485	-0.05
BL6	0.745	0.191
BL6a	1.333	1.025
BXD01	1.192	1.068
BXD010	1.561	0.389
BXD011	1.183	1.111
BXD03	1.942	1.226
BXD04	0.985	1.54
BXD05	1.564	1.519
BXD06	1.66	1.628
BXD07	1.048	1.066
BXD08	0.596	0.753
BXD09	1.566	1.651
CAST	0.754	0.053
CCcont	0.525	0.331
DS01	0.417	-0.113
DS02	0.225	0.98
DS04	0.587	-0.069
DS0c	0.839	0.734
GP01	1.223	-0.496
GP02	0.686	-0.388
GP0c	0.503	0.288
NOD	1.08	0.498
NZO	0.783	-0.72
PWK	0.261	-0.219
H37Rv_KO_CtpC	1.8	0.577
H37Rv_KO_CtpD	2.176	1.673
H37Rv_KO_Rv1272	1.204	2.453
H37Rv_KO_SugABC	1.845	0.893
H37Rv_KO_MbtN	-0.188	-0.355
Trans05	1.382	0.486
macrophage_unactivated	0.54	-0.407
IL1	0.638	0.528
Rapamycin	-0.405	-0.626
Tcell	0.394	0.499
GMCSF	-0.731	-1.336
IFNab	-0.417	-1.143
IFNg	0.12	0.051
IFNg_GMCSF1	0.0	-0.06
Rv1432_day32	0.314	0.119
Rv1565c_day32	-1.14	0.477
secA2_input	-0.589	-0.307
delta_Rv3594	-1.502	-0.852
delta_Rv3717	-0.599	-1.016
delta_Rv3811	-0.565	-0.94
delta_Rv0954	-0.432	-1.339
PonA1	-0.829	-0.643
EccD1_KO	-0.053	-0.155
EspI_KO	0.704	-0.245
PE35_KO	0.277	0.461
PPE68_KO	0.0	0.147
glycerol2	0.06	0.958
lignocerate	0.2	0.276
oleate	0.149	0.448
phosphatidylcholine	0.37	0.917
acetate	1.199	-0.145
glucAc	-0.133	-0.539
Rv0950ko	0.594	0.624
Rv1096ko	-1.224	0.648
Rv3684ko	-0.619	0.278
delta_otsA_trehalose	-0.459	0.554