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 Rv3784/-:

update plot	correlation	link to info on gene
Rv3018c/PPE46	(cc=0.6375)	info on Rv3018c/PPE46
Rv0138/-	(cc=0.601)	info on Rv0138/-
Rv1917c/PPE34	(cc=0.5793)	info on Rv1917c/PPE34
Rv0686/-	(cc=0.5563)	info on Rv0686/-
Rv2958c/-	(cc=0.541)	info on Rv2958c/-
Rv3487c/lipF	(cc=0.5374)	info on Rv3487c/lipF
Rv2332/mez	(cc=0.5243)	info on Rv2332/mez
Rv0814c/sseC2	(cc=0.5213)	info on Rv0814c/sseC2
Rv2351c/plcA	(cc=0.5186)	info on Rv2351c/plcA
Rv1760/-	(cc=0.5178)	info on Rv1760/-

Correlation of Rv3784/- with Rv2351c/plcA

Normalized LFCs for Rv3784/-:
(description and provenance of datasets)

	Rv3784/-	Rv2351c/plcA
Fe_supp_jason_reseq	0.006	0.699
low_pH_jason_reseq	-0.898	-1.404
NO_jason_reseq	-0.21	-0.097
B6_jason_reseq	0.092	0.563
MHCII_jason_reseq	0.297	0.412
Isoniazid02	0.688	0.026
Rifampicin4	-0.138	0.108
Ethambutol3	1.0	0.972
Meropenem3	0.948	0.4
Vancomycin16	0.066	-0.252
Rv2680_day32	0.337	-0.164
H37Rv_KO_MarP	0.03	-0.087
hypoxia_3wks	-0.04	-0.116
hypoxia_6wks	0.092	-0.008
glycerol	0.522	-0.183
cholesterol	0.186	-0.153
AJ	0.546	-0.096
Bibs02	0.0	0.142
Bibs02c	0.588	0.227
BL6	0.22	-0.668
BL6a	0.455	-0.327
BXD01	0.05	-0.364
BXD010	0.168	-0.452
BXD011	0.112	-0.356
BXD03	-0.091	0.006
BXD04	0.291	-0.627
BXD05	-0.244	-0.163
BXD06	0.22	-0.467
BXD07	-0.032	-0.537
BXD08	0.132	-0.5
BXD09	0.236	-0.536
CAST	0.506	0.239
CCcont	0.043	-0.433
DS01	0.185	-0.005
DS02	0.495	-0.126
DS04	-0.07	-0.129
DS0c	0.176	0.009
GP01	0.273	-0.208
GP02	0.114	0.134
GP0c	-0.022	-0.215
NOD	1.71	0.443
NZO	0.363	0.315
PWK	0.482	0.234
H37Rv_KO_CtpC	0.437	-0.033
H37Rv_KO_CtpD	0.656	0.209
H37Rv_KO_Rv1272	0.346	0.019
H37Rv_KO_SugABC	0.607	0.002
H37Rv_KO_MbtN	0.892	0.729
Trans05	0.842	-0.348
macrophage_unactivated	0.413	-0.448
IL1	-0.51	-0.448
Rapamycin	0.077	-0.411
Tcell	-0.222	-0.795
GMCSF	-0.235	-0.298
IFNab	-0.187	-0.405
IFNg	0.094	0.083
IFNg_GMCSF1	0.248	0.405
Rv1432_day32	0.623	-0.116
Rv1565c_day32	-0.316	0.054
secA2_input	-0.726	-0.346
delta_Rv3594	-0.494	0.164
delta_Rv3717	-0.488	-0.073
delta_Rv3811	-0.175	0.052
delta_Rv0954	-0.552	0.176
PonA1	-0.545	0.048
EccD1_KO	-0.135	-0.214
EspI_KO	0.225	-0.553
PE35_KO	-0.152	-0.525
PPE68_KO	-0.33	-0.451
glycerol2	0.737	1.162
lignocerate	0.811	0.964
oleate	0.777	1.297
phosphatidylcholine	0.817	0.957
acetate	0.243	0.16
glucAc	0.267	0.281
Rv0950ko	0.166	0.317
Rv1096ko	-0.621	-0.561
Rv3684ko	-0.606	0.0
delta_otsA_trehalose	-0.267	-0.197