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 Rv2286c/-:

update plot	correlation	link to info on gene
Rv1662/pks8	(cc=0.5405)	info on Rv1662/pks8
Rv1964/yrbE3A	(cc=0.4348)	info on Rv1964/yrbE3A
Rv3070/-	(cc=0.4133)	info on Rv3070/-
Rv1076/lipU	(cc=0.4132)	info on Rv1076/lipU
Rv0346c/ansP2	(cc=0.4094)	info on Rv0346c/ansP2
Rv2767c/-	(cc=0.4075)	info on Rv2767c/-
Rv1557/mmpL6	(cc=0.4048)	info on Rv1557/mmpL6
Rv1980c/mpt64	(cc=0.4005)	info on Rv1980c/mpt64
Rv2558/-	(cc=0.3882)	info on Rv2558/-
Rv2231c/cobC	(cc=0.3881)	info on Rv2231c/cobC

Correlation of Rv2286c/- with Rv1964/yrbE3A

Normalized LFCs for Rv2286c/-:
(description and provenance of datasets)

	Rv2286c/-	Rv1964/yrbE3A
Fe_supp_jason_reseq	-0.799	-0.073
low_pH_jason_reseq	-0.052	-0.617
NO_jason_reseq	-0.081	-0.462
B6_jason_reseq	-0.688	-2.076
MHCII_jason_reseq	-0.484	-0.791
Isoniazid02	-0.054	0.354
Rifampicin4	-1.007	0.761
Ethambutol3	-0.584	0.846
Meropenem3	-0.435	0.583
Vancomycin16	-0.138	0.615
Rv2680_day32	0.898	-1.004
H37Rv_KO_MarP	-0.246	-0.26
hypoxia_3wks	0.096	0.283
hypoxia_6wks	0.198	-0.044
glycerol	-0.908	-1.295
cholesterol	-1.314	-0.733
AJ	0.382	0.254
Bibs02	1.003	-0.596
Bibs02c	-0.182	0.045
BL6	1.322	0.527
BL6a	0.234	-0.221
BXD01	-0.07	-0.106
BXD010	0.431	-0.215
BXD011	0.243	0.438
BXD03	0.326	0.712
BXD04	0.063	0.135
BXD05	0.042	-0.197
BXD06	0.17	0.097
BXD07	0.558	0.104
BXD08	0.013	0.667
BXD09	0.699	-0.095
CAST	-0.307	-0.966
CCcont	0.219	0.193
DS01	-0.287	-0.662
DS02	-0.397	-0.422
DS04	-0.61	-0.436
DS0c	0.432	-0.154
GP01	1.435	1.515
GP02	-0.52	-1.02
GP0c	0.092	-0.057
NOD	0.023	0.758
NZO	0.432	-0.692
PWK	1.304	-0.672
H37Rv_KO_CtpC	1.458	0.933
H37Rv_KO_CtpD	1.137	1.268
H37Rv_KO_Rv1272	0.954	0.787
H37Rv_KO_SugABC	-1.775	-1.387
H37Rv_KO_MbtN	0.657	1.105
Trans05	1.095	0.554
macrophage_unactivated	0.672	0.297
IL1	0.519	-0.383
Rapamycin	0.654	-0.04
Tcell	0.57	0.163
GMCSF	0.251	0.28
IFNab	0.227	0.475
IFNg	0.086	1.36
IFNg_GMCSF1	1.2	0.383
Rv1432_day32	0.327	0.039
Rv1565c_day32	-0.493	-0.272
secA2_input	0.186	0.24
delta_Rv3594	0.959	0.405
delta_Rv3717	0.174	0.258
delta_Rv3811	1.038	0.721
delta_Rv0954	1.001	0.669
PonA1	0.613	0.084
EccD1_KO	0.431	-0.664
EspI_KO	0.399	-0.662
PE35_KO	-0.117	-0.379
PPE68_KO	0.243	-0.31
glycerol2	0.311	0.153
lignocerate	-0.017	0.509
oleate	0.465	-0.634
phosphatidylcholine	0.311	0.136
acetate	0.224	1.124
glucAc	1.153	0.876
Rv0950ko	-0.739	0.151
Rv1096ko	0.884	0.48
Rv3684ko	-0.18	0.888
delta_otsA_trehalose	0.648	0.359