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 Rv0885/-:

update plot	correlation	link to info on gene
Rv2290/lppO	(cc=0.5668)	info on Rv2290/lppO
Rv1365c/rsfA	(cc=0.5363)	info on Rv1365c/rsfA
Rv0526/-	(cc=0.5171)	info on Rv0526/-
Rv0892/-	(cc=0.4887)	info on Rv0892/-
Rv1709/scpA	(cc=0.4681)	info on Rv1709/scpA
Rv2537c/aroD	(cc=0.468)	info on Rv2537c/aroD
Rv1346/mbtN	(cc=0.4615)	info on Rv1346/mbtN
Rv0395/-	(cc=0.4489)	info on Rv0395/-
Rv1312/-	(cc=0.4398)	info on Rv1312/-
Rv2922c/smc	(cc=0.4188)	info on Rv2922c/smc

Correlation of Rv0885/- with Rv1709/scpA

Normalized LFCs for Rv0885/-:
(description and provenance of datasets)

	Rv0885/-	Rv1709/scpA
Fe_supp_jason_reseq	0.428	-0.865
low_pH_jason_reseq	0.888	-0.718
NO_jason_reseq	-0.249	1.019
B6_jason_reseq	-0.246	0.047
MHCII_jason_reseq	0.246	-0.021
Isoniazid02	-0.492	-1.224
Rifampicin4	-1.002	-0.544
Ethambutol3	-0.681	-1.285
Meropenem3	-0.502	0.486
Vancomycin16	0.225	-2.141
Rv2680_day32	-0.073	-0.462
H37Rv_KO_MarP	0.072	-0.696
hypoxia_3wks	0.04	-0.542
hypoxia_6wks	0.184	0.067
glycerol	-1.02	-0.484
cholesterol	0.396	0.426
AJ	0.067	0.499
Bibs02	0.567	-0.22
Bibs02c	-0.126	1.047
BL6	0.701	0.693
BL6a	0.6	1.28
BXD01	0.385	0.546
BXD010	1.024	1.171
BXD011	0.449	0.657
BXD03	0.727	0.176
BXD04	0.528	0.739
BXD05	1.058	0.641
BXD06	0.171	0.844
BXD07	0.752	0.484
BXD08	0.668	0.592
BXD09	0.525	0.703
CAST	0.132	0.085
CCcont	0.657	0.055
DS01	0.883	0.604
DS02	1.341	-0.055
DS04	0.815	0.398
DS0c	1.116	1.281
GP01	-0.112	0.252
GP02	0.578	-0.572
GP0c	-1.007	0.239
NOD	0.475	0.164
NZO	-0.407	-1.016
PWK	-0.675	1.101
H37Rv_KO_CtpC	0.42	1.333
H37Rv_KO_CtpD	0.129	1.511
H37Rv_KO_Rv1272	-0.288	0.592
H37Rv_KO_SugABC	0.658	-0.302
H37Rv_KO_MbtN	-0.606	-0.814
Trans05	0.784	0.905
macrophage_unactivated	-0.379	-0.691
IL1	0.475	-0.24
Rapamycin	-0.193	-1.007
Tcell	-0.049	-0.505
GMCSF	0.198	0.528
IFNab	0.336	-0.741
IFNg	0.446	0.176
IFNg_GMCSF1	0.393	-1.119
Rv1432_day32	-0.402	-1.64
Rv1565c_day32	0.265	1.041
secA2_input	0.302	0.366
delta_Rv3594	-0.023	-0.268
delta_Rv3717	-0.346	0.44
delta_Rv3811	-0.489	-0.135
delta_Rv0954	0.611	-1.833
PonA1	1.442	0.443
EccD1_KO	0.944	1.01
EspI_KO	0.733	1.928
PE35_KO	-0.295	0.753
PPE68_KO	0.339	0.454
glycerol2	-0.835	-1.681
lignocerate	-1.794	-2.151
oleate	-0.491	-1.701
phosphatidylcholine	-0.485	-2.105
acetate	-2.449	-1.132
glucAc	-1.323	-1.767
Rv0950ko	0.033	-0.368
Rv1096ko	0.648	1.013
Rv3684ko	-0.183	0.789
delta_otsA_trehalose	0.522	-1.327