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 Rv0814c/sseC2

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

	Rv3784/-	Rv0814c/sseC2
Fe_supp_jason_reseq	0.006	1.257
low_pH_jason_reseq	-0.898	-1.021
NO_jason_reseq	-0.21	-0.449
B6_jason_reseq	0.092	-0.872
MHCII_jason_reseq	0.297	-0.833
Isoniazid02	0.688	-0.704
Rifampicin4	-0.138	-0.244
Ethambutol3	1.0	1.422
Meropenem3	0.948	0.426
Vancomycin16	0.066	-0.528
Rv2680_day32	0.337	-1.282
H37Rv_KO_MarP	0.03	-1.143
hypoxia_3wks	-0.04	-0.59
hypoxia_6wks	0.092	-0.286
glycerol	0.522	-0.584
cholesterol	0.186	-0.013
AJ	0.546	1.035
Bibs02	0.0	1.461
Bibs02c	0.588	1.091
BL6	0.22	-0.327
BL6a	0.455	0.314
BXD01	0.05	0.642
BXD010	0.168	0.4
BXD011	0.112	0.711
BXD03	-0.091	1.115
BXD04	0.291	1.163
BXD05	-0.244	0.487
BXD06	0.22	0.724
BXD07	-0.032	0.637
BXD08	0.132	0.879
BXD09	0.236	0.203
CAST	0.506	3.372
CCcont	0.043	1.338
DS01	0.185	1.17
DS02	0.495	1.245
DS04	-0.07	0.058
DS0c	0.176	0.476
GP01	0.273	-0.619
GP02	0.114	-0.82
GP0c	-0.022	-0.785
NOD	1.71	0.867
NZO	0.363	0.149
PWK	0.482	0.662
H37Rv_KO_CtpC	0.437	-0.049
H37Rv_KO_CtpD	0.656	0.825
H37Rv_KO_Rv1272	0.346	1.101
H37Rv_KO_SugABC	0.607	1.171
H37Rv_KO_MbtN	0.892	0.989
Trans05	0.842	1.089
macrophage_unactivated	0.413	-0.35
IL1	-0.51	-1.163
Rapamycin	0.077	-0.316
Tcell	-0.222	-1.206
GMCSF	-0.235	0.108
IFNab	-0.187	-0.311
IFNg	0.094	-0.083
IFNg_GMCSF1	0.248	1.417
Rv1432_day32	0.623	-0.824
Rv1565c_day32	-0.316	-0.229
secA2_input	-0.726	0.149
delta_Rv3594	-0.494	-2.856
delta_Rv3717	-0.488	-3.69
delta_Rv3811	-0.175	-3.123
delta_Rv0954	-0.552	-2.423
PonA1	-0.545	-3.053
EccD1_KO	-0.135	-0.181
EspI_KO	0.225	0.288
PE35_KO	-0.152	0.563
PPE68_KO	-0.33	0.195
glycerol2	0.737	0.506
lignocerate	0.811	0.357
oleate	0.777	0.838
phosphatidylcholine	0.817	0.65
acetate	0.243	1.538
glucAc	0.267	0.202
Rv0950ko	0.166	-0.118
Rv1096ko	-0.621	-0.639
Rv3684ko	-0.606	-1.339
delta_otsA_trehalose	-0.267	-0.57