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 Rv2266/cyp124:

update plot	correlation	link to info on gene
Rv1554/frdC	(cc=0.5296)	info on Rv1554/frdC
Rv1571/-	(cc=0.475)	info on Rv1571/-
Rv2556c/-	(cc=0.4623)	info on Rv2556c/-
Rv1953/vapC14	(cc=0.4517)	info on Rv1953/vapC14
Rv2270/lppN	(cc=0.4411)	info on Rv2270/lppN
Rv2072c/cobL	(cc=0.4403)	info on Rv2072c/cobL
Rv2576c/-	(cc=0.432)	info on Rv2576c/-
Rv2296/-	(cc=0.428)	info on Rv2296/-
Rv1739c/-	(cc=0.4223)	info on Rv1739c/-
Rv2964/purU	(cc=0.4175)	info on Rv2964/purU

Correlation of Rv2266/cyp124 with Rv1554/frdC

Normalized LFCs for Rv2266/cyp124:
(description and provenance of datasets)

	Rv2266/cyp124	Rv1554/frdC
Fe_supp_jason_reseq	0.152	-0.125
low_pH_jason_reseq	0.398	0.497
NO_jason_reseq	-0.685	-0.333
B6_jason_reseq	0.624	1.17
MHCII_jason_reseq	-0.08	0.359
Isoniazid02	-0.191	0.054
Rifampicin4	-0.057	0.328
Ethambutol3	-0.305	0.139
Meropenem3	0.449	-0.158
Vancomycin16	-0.17	-0.244
Rv2680_day32	-0.363	0.035
H37Rv_KO_MarP	-0.164	0.377
hypoxia_3wks	0.622	0.977
hypoxia_6wks	0.664	1.472
glycerol	0.149	0.187
cholesterol	0.0	0.847
AJ	-0.237	-0.071
Bibs02	0.441	0.522
Bibs02c	0.953	0.5
BL6	-0.044	-0.352
BL6a	0.366	0.643
BXD01	0.044	0.13
BXD010	0.053	0.88
BXD011	-0.651	0.297
BXD03	-0.16	-0.195
BXD04	-0.689	0.212
BXD05	-0.373	0.648
BXD06	-0.106	0.271
BXD07	0.24	0.442
BXD08	0.198	1.1
BXD09	0.058	0.546
CAST	-0.439	0.0
CCcont	-0.285	-0.376
DS01	0.409	0.977
DS02	-0.397	0.682
DS04	-0.097	0.308
DS0c	0.464	0.908
GP01	0.405	0.888
GP02	0.368	0.49
GP0c	-0.871	-0.328
NOD	-0.355	0.099
NZO	0.014	0.733
PWK	-0.617	0.571
H37Rv_KO_CtpC	-0.867	0.173
H37Rv_KO_CtpD	0.263	1.074
H37Rv_KO_Rv1272	0.966	0.957
H37Rv_KO_SugABC	0.593	0.243
H37Rv_KO_MbtN	-0.277	0.13
Trans05	0.613	1.146
macrophage_unactivated	-0.363	0.758
IL1	-0.851	0.534
Rapamycin	-0.092	0.552
Tcell	-0.098	0.274
GMCSF	-0.599	0.246
IFNab	-0.907	0.378
IFNg	-0.607	0.5
IFNg_GMCSF1	-1.474	0.729
Rv1432_day32	0.471	0.789
Rv1565c_day32	0.392	0.809
secA2_input	-1.01	-1.088
delta_Rv3594	0.84	0.837
delta_Rv3717	0.584	0.59
delta_Rv3811	0.802	-0.042
delta_Rv0954	0.291	0.372
PonA1	-0.881	0.182
EccD1_KO	0.96	1.95
EspI_KO	0.653	0.625
PE35_KO	1.327	1.301
PPE68_KO	1.03	0.966
glycerol2	-0.356	-0.343
lignocerate	-0.247	-0.446
oleate	0.081	-0.121
phosphatidylcholine	-0.394	-0.381
acetate	-0.256	-0.56
glucAc	-0.71	-0.739
Rv0950ko	-0.63	0.256
Rv1096ko	-0.401	-0.799
Rv3684ko	0.033	-0.982
delta_otsA_trehalose	-1.33	0.076