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 Rv0686/-

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

	Rv3784/-	Rv0686/-
Fe_supp_jason_reseq	0.006	0.33
low_pH_jason_reseq	-0.898	-0.815
NO_jason_reseq	-0.21	-0.276
B6_jason_reseq	0.092	0.488
MHCII_jason_reseq	0.297	0.666
Isoniazid02	0.688	0.806
Rifampicin4	-0.138	0.127
Ethambutol3	1.0	2.719
Meropenem3	0.948	-0.133
Vancomycin16	0.066	0.313
Rv2680_day32	0.337	-0.045
H37Rv_KO_MarP	0.03	0.402
hypoxia_3wks	-0.04	-0.175
hypoxia_6wks	0.092	0.271
glycerol	0.522	0.487
cholesterol	0.186	-0.611
AJ	0.546	0.35
Bibs02	0.0	0.276
Bibs02c	0.588	0.474
BL6	0.22	0.009
BL6a	0.455	0.442
BXD01	0.05	0.179
BXD010	0.168	0.444
BXD011	0.112	0.502
BXD03	-0.091	0.172
BXD04	0.291	0.046
BXD05	-0.244	-0.047
BXD06	0.22	0.044
BXD07	-0.032	0.227
BXD08	0.132	0.068
BXD09	0.236	-0.127
CAST	0.506	0.192
CCcont	0.043	0.315
DS01	0.185	-0.082
DS02	0.495	-0.298
DS04	-0.07	-0.325
DS0c	0.176	0.355
GP01	0.273	0.279
GP02	0.114	0.061
GP0c	-0.022	-0.218
NOD	1.71	1.232
NZO	0.363	0.262
PWK	0.482	0.706
H37Rv_KO_CtpC	0.437	0.754
H37Rv_KO_CtpD	0.656	0.149
H37Rv_KO_Rv1272	0.346	0.516
H37Rv_KO_SugABC	0.607	0.055
H37Rv_KO_MbtN	0.892	0.393
Trans05	0.842	0.881
macrophage_unactivated	0.413	0.325
IL1	-0.51	-0.418
Rapamycin	0.077	-0.568
Tcell	-0.222	0.055
GMCSF	-0.235	-0.457
IFNab	-0.187	-1.094
IFNg	0.094	-0.986
IFNg_GMCSF1	0.248	-0.581
Rv1432_day32	0.623	0.413
Rv1565c_day32	-0.316	0.299
secA2_input	-0.726	-0.54
delta_Rv3594	-0.494	0.381
delta_Rv3717	-0.488	0.442
delta_Rv3811	-0.175	0.052
delta_Rv0954	-0.552	-0.249
PonA1	-0.545	-1.137
EccD1_KO	-0.135	0.414
EspI_KO	0.225	0.066
PE35_KO	-0.152	0.548
PPE68_KO	-0.33	0.09
glycerol2	0.737	0.283
lignocerate	0.811	0.531
oleate	0.777	0.305
phosphatidylcholine	0.817	0.123
acetate	0.243	0.038
glucAc	0.267	0.135
Rv0950ko	0.166	0.127
Rv1096ko	-0.621	-0.47
Rv3684ko	-0.606	-0.688
delta_otsA_trehalose	-0.267	0.603