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 Rv0778/cyp126:

update plot	correlation	link to info on gene
Rv0892/-	(cc=0.5985)	info on Rv0892/-
Rv0766c/cyp123	(cc=0.4897)	info on Rv0766c/cyp123
Rv0003/recF	(cc=0.486)	info on Rv0003/recF
Rv2537c/aroD	(cc=0.4777)	info on Rv2537c/aroD
Rv3116/moeB2	(cc=0.4552)	info on Rv3116/moeB2
Rv2530c/vapC39	(cc=0.4494)	info on Rv2530c/vapC39
Rv1298/rpmE	(cc=0.4475)	info on Rv1298/rpmE
Rv0781/ptrBa	(cc=0.4441)	info on Rv0781/ptrBa
Rv3104c/-	(cc=0.4422)	info on Rv3104c/-
Rv3125c/PPE49	(cc=0.4272)	info on Rv3125c/PPE49

Correlation of Rv0778/cyp126 with Rv0003/recF

Normalized LFCs for Rv0778/cyp126:
(description and provenance of datasets)

	Rv0778/cyp126	Rv0003/recF
Fe_supp_jason_reseq	2.014	2.382
low_pH_jason_reseq	-0.571	0.0
NO_jason_reseq	-0.651	0.281
B6_jason_reseq	0.523	0.333
MHCII_jason_reseq	0.706	0.0
Isoniazid02	-0.525	0.063
Rifampicin4	0.157	-1.086
Ethambutol3	-0.403	-0.288
Meropenem3	0.298	-0.624
Vancomycin16	0.154	-0.913
Rv2680_day32	0.508	-0.554
H37Rv_KO_MarP	-0.423	-0.807
hypoxia_3wks	0.534	-1.344
hypoxia_6wks	-0.021	-1.416
glycerol	0.736	1.24
cholesterol	0.449	1.099
AJ	0.824	-0.168
Bibs02	0.174	-0.273
Bibs02c	0.246	0.0
BL6	-0.148	0.084
BL6a	0.756	0.696
BXD01	0.734	0.322
BXD010	0.959	0.0
BXD011	0.899	0.383
BXD03	0.561	0.475
BXD04	1.184	0.305
BXD05	0.862	0.176
BXD06	0.836	0.469
BXD07	0.79	0.796
BXD08	0.618	0.174
BXD09	0.696	0.494
CAST	0.756	-0.344
CCcont	-0.056	1.531
DS01	0.921	0.159
DS02	1.078	0.147
DS04	0.207	0.37
DS0c	0.919	0.652
GP01	-0.265	0.68
GP02	-0.021	-0.06
GP0c	0.665	1.112
NOD	1.642	-0.163
NZO	0.581	0.134
PWK	0.715	-0.142
H37Rv_KO_CtpC	0.916	0.401
H37Rv_KO_CtpD	1.194	0.778
H37Rv_KO_Rv1272	-0.269	0.185
H37Rv_KO_SugABC	1.345	1.183
H37Rv_KO_MbtN	0.918	0.069
Trans05	0.278	0.249
macrophage_unactivated	1.042	0.701
IL1	0.0	-0.78
Rapamycin	0.341	-0.807
Tcell	0.437	-0.267
GMCSF	0.591	0.0
IFNab	0.0	0.877
IFNg	1.04	0.208
IFNg_GMCSF1	0.566	0.478
Rv1432_day32	-0.624	-1.005
Rv1565c_day32	-0.347	-0.362
secA2_input	0.23	-0.714
delta_Rv3594	0.72	0.33
delta_Rv3717	-0.162	-0.542
delta_Rv3811	0.744	0.492
delta_Rv0954	0.549	0.116
PonA1	0.753	-0.426
EccD1_KO	0.52	1.01
EspI_KO	0.893	-0.108
PE35_KO	0.983	1.155
PPE68_KO	0.841	1.078
glycerol2	-0.13	-2.152
lignocerate	-0.614	-2.157
oleate	0.39	-2.178
phosphatidylcholine	0.088	-2.053
acetate	-0.748	-0.775
glucAc	-1.202	-0.554
Rv0950ko	0.329	0.0
Rv1096ko	0.633	0.899
Rv3684ko	0.121	0.377
delta_otsA_trehalose	-1.184	-0.711