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 Rv3111/moaC1:

update plot	correlation	link to info on gene
Rv2780/ald	(cc=0.4775)	info on Rv2780/ald
Rv2293c/-	(cc=0.4626)	info on Rv2293c/-
Rv0659c/mazF2	(cc=0.4224)	info on Rv0659c/mazF2
Rv2282c/-	(cc=0.4206)	info on Rv2282c/-
Rv1135A/-	(cc=0.412)	info on Rv1135A/-
Rv2888c/amiC	(cc=0.405)	info on Rv2888c/amiC
Rv2435c/-	(cc=0.4005)	info on Rv2435c/-
Rv2653c/-	(cc=0.3857)	info on Rv2653c/-
Rv0141c/-	(cc=0.3793)	info on Rv0141c/-
Rv1938/ephB	(cc=0.3635)	info on Rv1938/ephB

Correlation of Rv3111/moaC1 with Rv2435c/-

Normalized LFCs for Rv3111/moaC1:
(description and provenance of datasets)

	Rv3111/moaC1	Rv2435c/-
Fe_supp_jason_reseq	0.838	-0.523
low_pH_jason_reseq	0.206	0.371
NO_jason_reseq	0.69	-0.357
B6_jason_reseq	0.999	-0.421
MHCII_jason_reseq	0.561	0.088
Isoniazid02	-0.02	0.901
Rifampicin4	-0.119	0.07
Ethambutol3	-0.165	-0.063
Meropenem3	1.355	0.284
Vancomycin16	3.398	0.512
Rv2680_day32	-0.225	-0.527
H37Rv_KO_MarP	-0.848	0.035
hypoxia_3wks	0.494	0.355
hypoxia_6wks	1.493	0.217
glycerol	-0.992	-0.66
cholesterol	-0.674	-0.142
AJ	-0.039	0.795
Bibs02	1.103	0.111
Bibs02c	0.132	0.095
BL6	-0.151	-0.235
BL6a	0.818	0.06
BXD01	0.142	0.518
BXD010	0.348	0.058
BXD011	0.424	0.719
BXD03	-0.164	0.233
BXD04	-0.674	0.98
BXD05	-0.265	0.446
BXD06	0.0	0.457
BXD07	-0.386	0.202
BXD08	-0.066	0.47
BXD09	0.611	0.645
CAST	1.368	0.486
CCcont	-0.55	-0.457
DS01	-0.465	0.212
DS02	-0.654	-0.25
DS04	1.358	-0.634
DS0c	0.0	-0.035
GP01	-0.175	0.13
GP02	-1.205	0.339
GP0c	-0.673	0.04
NOD	1.048	0.233
NZO	0.517	0.471
PWK	-0.237	0.512
H37Rv_KO_CtpC	1.067	0.917
H37Rv_KO_CtpD	-0.042	0.715
H37Rv_KO_Rv1272	0.672	1.096
H37Rv_KO_SugABC	0.677	0.404
H37Rv_KO_MbtN	-0.379	0.364
Trans05	-0.284	0.947
macrophage_unactivated	3.295	0.584
IL1	-0.561	0.0
Rapamycin	-0.43	-0.654
Tcell	0.609	-0.065
GMCSF	-0.636	0.053
IFNab	-0.423	0.175
IFNg	0.396	-0.388
IFNg_GMCSF1	0.996	-0.063
Rv1432_day32	0.4	0.386
Rv1565c_day32	0.85	0.308
secA2_input	-1.713	-1.39
delta_Rv3594	0.274	0.451
delta_Rv3717	-0.106	0.028
delta_Rv3811	-0.303	0.518
delta_Rv0954	-0.525	-0.209
PonA1	-0.031	-0.335
EccD1_KO	0.536	-0.138
EspI_KO	0.884	-0.12
PE35_KO	0.971	0.726
PPE68_KO	1.683	1.017
glycerol2	-0.067	-0.369
lignocerate	-0.675	-0.776
oleate	0.632	0.201
phosphatidylcholine	0.087	-0.032
acetate	-1.207	-0.652
glucAc	-1.655	-1.378
Rv0950ko	-0.727	0.145
Rv1096ko	-1.071	-0.151
Rv3684ko	-1.163	-0.511
delta_otsA_trehalose	0.068	0.591