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 Rv3231c/-:

update plot	correlation	link to info on gene
Rv3767c/-	(cc=0.4502)	info on Rv3767c/-
Rv3033/-	(cc=0.4488)	info on Rv3033/-
Rv2127/ansP1	(cc=0.4317)	info on Rv2127/ansP1
Rv2389c/rpfD	(cc=0.4294)	info on Rv2389c/rpfD
Rv2113/-	(cc=0.4104)	info on Rv2113/-
Rv1875/-	(cc=0.4025)	info on Rv1875/-
Rv0251c/hsp	(cc=0.3941)	info on Rv0251c/hsp
Rv3685c/cyp137	(cc=0.3894)	info on Rv3685c/cyp137
Rv2129c/-	(cc=0.3867)	info on Rv2129c/-
Rv3390/lpqD	(cc=0.3861)	info on Rv3390/lpqD

Correlation of Rv3231c/- with Rv2389c/rpfD

Normalized LFCs for Rv3231c/-:
(description and provenance of datasets)

	Rv3231c/-	Rv2389c/rpfD
Fe_supp_jason_reseq	-0.062	-0.362
low_pH_jason_reseq	-1.261	-0.435
NO_jason_reseq	-1.347	0.197
B6_jason_reseq	-0.766	-0.716
MHCII_jason_reseq	-0.773	-0.625
Isoniazid02	0.153	0.086
Rifampicin4	-0.016	0.049
Ethambutol3	0.229	-0.016
Meropenem3	0.948	2.093
Vancomycin16	0.22	-0.064
Rv2680_day32	0.878	0.647
H37Rv_KO_MarP	0.121	0.553
hypoxia_3wks	0.0	0.355
hypoxia_6wks	-1.213	-0.019
glycerol	-0.5	0.891
cholesterol	-0.921	-0.168
AJ	-0.16	0.0
Bibs02	0.698	-0.17
Bibs02c	-0.45	0.435
BL6	0.271	0.489
BL6a	-0.415	0.672
BXD01	-0.374	-0.141
BXD010	-0.523	0.577
BXD011	0.664	0.542
BXD03	0.438	0.242
BXD04	1.026	0.34
BXD05	0.125	0.563
BXD06	0.186	0.173
BXD07	-0.198	0.135
BXD08	0.316	-0.097
BXD09	0.137	0.337
CAST	-0.072	0.135
CCcont	-0.727	-0.29
DS01	-0.775	0.026
DS02	0.109	-0.047
DS04	0.606	0.342
DS0c	0.201	-0.286
GP01	-1.246	0.004
GP02	-1.696	0.234
GP0c	-0.365	0.43
NOD	-1.022	0.298
NZO	-1.072	-0.176
PWK	-0.644	0.128
H37Rv_KO_CtpC	0.857	0.735
H37Rv_KO_CtpD	0.419	0.486
H37Rv_KO_Rv1272	1.227	1.233
H37Rv_KO_SugABC	0.385	0.781
H37Rv_KO_MbtN	-0.608	0.418
Trans05	0.957	0.521
macrophage_unactivated	1.351	0.597
IL1	0.801	0.887
Rapamycin	1.096	1.148
Tcell	-0.71	-0.994
GMCSF	1.143	0.969
IFNab	0.732	0.865
IFNg	0.615	1.264
IFNg_GMCSF1	0.248	1.458
Rv1432_day32	2.394	0.332
Rv1565c_day32	0.723	0.482
secA2_input	0.828	-0.178
delta_Rv3594	1.06	-0.202
delta_Rv3717	-0.286	-0.321
delta_Rv3811	0.729	-0.586
delta_Rv0954	0.213	-0.295
PonA1	1.182	0.614
EccD1_KO	-0.506	0.812
EspI_KO	0.311	0.633
PE35_KO	-0.493	0.534
PPE68_KO	-0.928	0.195
glycerol2	0.531	-0.581
lignocerate	-0.245	-1.078
oleate	1.713	0.302
phosphatidylcholine	0.352	-0.294
acetate	-0.048	-1.282
glucAc	-1.524	-1.315
Rv0950ko	-0.452	0.443
Rv1096ko	0.347	0.169
Rv3684ko	0.265	0.144
delta_otsA_trehalose	2.083	1.314