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 Rv1365c/rsfA:

update plot	correlation	link to info on gene
Rv0885/-	(cc=0.5363)	info on Rv0885/-
Rv3525c/-	(cc=0.4917)	info on Rv3525c/-
Rv1507A/-	(cc=0.4834)	info on Rv1507A/-
Rv3116/moeB2	(cc=0.4777)	info on Rv3116/moeB2
Rv2061c/-	(cc=0.4642)	info on Rv2061c/-
Rv2922c/smc	(cc=0.4617)	info on Rv2922c/smc
Rv3361c/-	(cc=0.4594)	info on Rv3361c/-
Rv2196/qcrB	(cc=0.449)	info on Rv2196/qcrB
Rv1261c/-	(cc=0.4488)	info on Rv1261c/-
Rv2290/lppO	(cc=0.4464)	info on Rv2290/lppO

Correlation of Rv1365c/rsfA with Rv0885/-

Normalized LFCs for Rv1365c/rsfA:
(description and provenance of datasets)

	Rv1365c/rsfA	Rv0885/-
Fe_supp_jason_reseq	0.415	0.428
low_pH_jason_reseq	-0.022	0.888
NO_jason_reseq	-1.57	-0.249
B6_jason_reseq	0.269	-0.246
MHCII_jason_reseq	-0.315	0.246
Isoniazid02	-0.968	-0.492
Rifampicin4	0.623	-1.002
Ethambutol3	-0.809	-0.681
Meropenem3	-0.996	-0.502
Vancomycin16	-0.422	0.225
Rv2680_day32	0.526	-0.073
H37Rv_KO_MarP	0.474	0.072
hypoxia_3wks	0.562	0.04
hypoxia_6wks	0.173	0.184
glycerol	0.492	-1.02
cholesterol	0.559	0.396
AJ	-0.583	0.067
Bibs02	0.546	0.567
Bibs02c	2.099	-0.126
BL6	1.781	0.701
BL6a	1.759	0.6
BXD01	0.977	0.385
BXD010	1.214	1.024
BXD011	1.783	0.449
BXD03	0.909	0.727
BXD04	1.551	0.528
BXD05	0.982	1.058
BXD06	1.132	0.171
BXD07	1.649	0.752
BXD08	1.453	0.668
BXD09	1.469	0.525
CAST	0.522	0.132
CCcont	0.434	0.657
DS01	0.944	0.883
DS02	1.705	1.341
DS04	2.689	0.815
DS0c	0.211	1.116
GP01	-1.344	-0.112
GP02	0.189	0.578
GP0c	-1.286	-1.007
NOD	-0.291	0.475
NZO	-0.449	-0.407
PWK	-0.651	-0.675
H37Rv_KO_CtpC	0.672	0.42
H37Rv_KO_CtpD	-0.351	0.129
H37Rv_KO_Rv1272	-0.183	-0.288
H37Rv_KO_SugABC	-1.06	0.658
H37Rv_KO_MbtN	0.164	-0.606
Trans05	0.138	0.784
macrophage_unactivated	1.367	-0.379
IL1	0.786	0.475
Rapamycin	0.859	-0.193
Tcell	0.459	-0.049
GMCSF	0.987	0.198
IFNab	1.061	0.336
IFNg	0.588	0.446
IFNg_GMCSF1	1.832	0.393
Rv1432_day32	0.591	-0.402
Rv1565c_day32	-0.286	0.265
secA2_input	0.221	0.302
delta_Rv3594	0.422	-0.023
delta_Rv3717	0.581	-0.346
delta_Rv3811	0.714	-0.489
delta_Rv0954	0.778	0.611
PonA1	0.779	1.442
EccD1_KO	0.842	0.944
EspI_KO	-0.297	0.733
PE35_KO	0.254	-0.295
PPE68_KO	0.966	0.339
glycerol2	-1.079	-0.835
lignocerate	-1.143	-1.794
oleate	-0.034	-0.491
phosphatidylcholine	-0.57	-0.485
acetate	-1.44	-2.449
glucAc	-1.679	-1.323
Rv0950ko	-2.035	0.033
Rv1096ko	-0.44	0.648
Rv3684ko	-0.203	-0.183
delta_otsA_trehalose	0.0	0.522