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 Rv1576c/-:

update plot	correlation	link to info on gene
Rv3159c/PPE53	(cc=0.4671)	info on Rv3159c/PPE53
Rv2519/PE26	(cc=0.4367)	info on Rv2519/PE26
Rv3659c/-	(cc=0.4332)	info on Rv3659c/-
Rv2307B/-	(cc=0.4062)	info on Rv2307B/-
Rv1490/-	(cc=0.4025)	info on Rv1490/-
Rv1529/fadD24	(cc=0.4006)	info on Rv1529/fadD24
Rv0341/iniB	(cc=0.3948)	info on Rv0341/iniB
Rv1876/bfrA	(cc=0.3917)	info on Rv1876/bfrA
Rv0988/-	(cc=0.3915)	info on Rv0988/-
Rv2666/-	(cc=0.3914)	info on Rv2666/-

Correlation of Rv1576c/- with Rv3159c/PPE53

Normalized LFCs for Rv1576c/-:
(description and provenance of datasets)

	Rv1576c/-	Rv3159c/PPE53
Fe_supp_jason_reseq	0.442	0.499
low_pH_jason_reseq	-0.179	0.025
NO_jason_reseq	0.263	0.63
B6_jason_reseq	-0.386	-0.405
MHCII_jason_reseq	-0.474	-0.015
Isoniazid02	0.0	-0.812
Rifampicin4	0.0	0.994
Ethambutol3	0.0	1.429
Meropenem3	0.0	-0.349
Vancomycin16	0.0	0.366
Rv2680_day32	0.131	0.779
H37Rv_KO_MarP	1.01	0.502
hypoxia_3wks	0.0	-0.116
hypoxia_6wks	0.0	-0.04
glycerol	0.0	-0.475
cholesterol	1.387	0.44
AJ	0.232	0.466
Bibs02	0.0	0.273
Bibs02c	0.0	-0.52
BL6	0.0	0.835
BL6a	0.0	0.227
BXD01	0.0	0.293
BXD010	0.0	0.267
BXD011	0.0	-0.149
BXD03	0.0	0.337
BXD04	0.0	0.195
BXD05	0.135	0.418
BXD06	0.0	0.256
BXD07	0.0	0.623
BXD08	0.0	-0.111
BXD09	0.0	0.405
CAST	3.275	1.081
CCcont	0.0	0.249
DS01	0.0	-0.048
DS02	0.0	-0.09
DS04	1.858	0.631
DS0c	0.0	0.042
GP01	0.0	0.058
GP02	0.0	0.24
GP0c	0.0	0.113
NOD	1.38	1.181
NZO	1.107	0.987
PWK	0.374	0.458
H37Rv_KO_CtpC	1.865	0.611
H37Rv_KO_CtpD	0.348	1.063
H37Rv_KO_Rv1272	0.269	0.5
H37Rv_KO_SugABC	3.834	0.874
H37Rv_KO_MbtN	0.283	1.067
Trans05	1.138	0.671
macrophage_unactivated	0.0	0.129
IL1	0.0	-0.59
Rapamycin	0.0	-0.5
Tcell	0.0	-0.101
GMCSF	0.0	0.314
IFNab	0.0	-0.493
IFNg	0.0	-0.168
IFNg_GMCSF1	0.0	-0.132
Rv1432_day32	-0.713	0.365
Rv1565c_day32	0.749	0.03
secA2_input	0.772	0.185
delta_Rv3594	0.119	0.375
delta_Rv3717	0.668	0.05
delta_Rv3811	-0.253	0.262
delta_Rv0954	1.072	-0.425
PonA1	-0.979	-0.112
EccD1_KO	-1.424	-0.595
EspI_KO	-0.317	0.602
PE35_KO	-0.324	0.785
PPE68_KO	-0.544	0.643
glycerol2	-0.369	0.154
lignocerate	-0.32	-0.222
oleate	-0.373	0.553
phosphatidylcholine	-0.368	0.237
acetate	-0.437	-0.228
glucAc	-0.272	-0.361
Rv0950ko	1.128	0.081
Rv1096ko	-0.89	-0.838
Rv3684ko	-1.418	-0.946
delta_otsA_trehalose	-1.032	0.027