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 Rv2290/lppO

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

	Rv0885/-	Rv2290/lppO
Fe_supp_jason_reseq	0.428	0.537
low_pH_jason_reseq	0.888	-0.182
NO_jason_reseq	-0.249	-0.06
B6_jason_reseq	-0.246	0.398
MHCII_jason_reseq	0.246	0.099
Isoniazid02	-0.492	-0.336
Rifampicin4	-1.002	-1.064
Ethambutol3	-0.681	-0.545
Meropenem3	-0.502	-0.736
Vancomycin16	0.225	-0.438
Rv2680_day32	-0.073	-0.222
H37Rv_KO_MarP	0.072	0.792
hypoxia_3wks	0.04	0.0
hypoxia_6wks	0.184	0.167
glycerol	-1.02	-0.012
cholesterol	0.396	-0.244
AJ	0.067	0.027
Bibs02	0.567	0.813
Bibs02c	-0.126	0.129
BL6	0.701	0.556
BL6a	0.6	0.288
BXD01	0.385	-0.892
BXD010	1.024	0.448
BXD011	0.449	0.75
BXD03	0.727	0.257
BXD04	0.528	0.135
BXD05	1.058	0.658
BXD06	0.171	0.075
BXD07	0.752	0.07
BXD08	0.668	0.008
BXD09	0.525	0.358
CAST	0.132	-0.312
CCcont	0.657	-0.026
DS01	0.883	0.014
DS02	1.341	-0.309
DS04	0.815	0.011
DS0c	1.116	-0.366
GP01	-0.112	0.26
GP02	0.578	0.0
GP0c	-1.007	-0.57
NOD	0.475	0.592
NZO	-0.407	-0.107
PWK	-0.675	-0.117
H37Rv_KO_CtpC	0.42	0.228
H37Rv_KO_CtpD	0.129	-0.867
H37Rv_KO_Rv1272	-0.288	-0.421
H37Rv_KO_SugABC	0.658	0.271
H37Rv_KO_MbtN	-0.606	0.253
Trans05	0.784	-0.331
macrophage_unactivated	-0.379	-0.123
IL1	0.475	-0.442
Rapamycin	-0.193	-0.264
Tcell	-0.049	-0.652
GMCSF	0.198	0.214
IFNab	0.336	-0.408
IFNg	0.446	0.102
IFNg_GMCSF1	0.393	1.59
Rv1432_day32	-0.402	0.332
Rv1565c_day32	0.265	0.302
secA2_input	0.302	-0.935
delta_Rv3594	-0.023	1.213
delta_Rv3717	-0.346	0.339
delta_Rv3811	-0.489	0.663
delta_Rv0954	0.611	-0.09
PonA1	1.442	0.436
EccD1_KO	0.944	0.556
EspI_KO	0.733	0.311
PE35_KO	-0.295	1.0
PPE68_KO	0.339	0.621
glycerol2	-0.835	-1.833
lignocerate	-1.794	-2.314
oleate	-0.491	-1.733
phosphatidylcholine	-0.485	-2.438
acetate	-2.449	-3.262
glucAc	-1.323	-1.611
Rv0950ko	0.033	0.537
Rv1096ko	0.648	-0.588
Rv3684ko	-0.183	-0.743
delta_otsA_trehalose	0.522	-0.472