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 Rv1377c/-:

update plot	correlation	link to info on gene
Rv0329c/-	(cc=0.4981)	info on Rv0329c/-
Rv0664/vapB8	(cc=0.4956)	info on Rv0664/vapB8
Rv2499c/-	(cc=0.4812)	info on Rv2499c/-
Rv2009/vapB15	(cc=0.478)	info on Rv2009/vapB15
Rv2802c/-	(cc=0.4693)	info on Rv2802c/-
Rv1192/-	(cc=0.458)	info on Rv1192/-
Rv1186c/-	(cc=0.4524)	info on Rv1186c/-
Rv1974/-	(cc=0.4448)	info on Rv1974/-
Rv1731/gabD2	(cc=0.4447)	info on Rv1731/gabD2
Rv2813/-	(cc=0.4369)	info on Rv2813/-

Correlation of Rv1377c/- with Rv1731/gabD2

Normalized LFCs for Rv1377c/-:
(description and provenance of datasets)

	Rv1377c/-	Rv1731/gabD2
Fe_supp_jason_reseq	1.35	1.414
low_pH_jason_reseq	-0.952	-0.234
NO_jason_reseq	0.042	-0.496
B6_jason_reseq	-0.018	0.968
MHCII_jason_reseq	0.206	0.922
Isoniazid02	0.658	2.222
Rifampicin4	0.81	0.612
Ethambutol3	0.209	1.846
Meropenem3	0.987	0.787
Vancomycin16	1.035	0.485
Rv2680_day32	0.142	-0.77
H37Rv_KO_MarP	0.323	0.976
hypoxia_3wks	-0.574	-0.311
hypoxia_6wks	-0.819	-0.762
glycerol	0.496	0.143
cholesterol	0.857	0.103
AJ	0.032	-0.844
Bibs02	0.617	-0.906
Bibs02c	-0.462	-0.126
BL6	-0.465	-0.135
BL6a	0.0	-0.679
BXD01	0.335	-0.878
BXD010	0.071	-0.388
BXD011	-0.185	-0.631
BXD03	0.278	-1.159
BXD04	-0.524	-0.293
BXD05	-0.5	-0.531
BXD06	0.083	-0.527
BXD07	0.14	-0.787
BXD08	0.281	-0.512
BXD09	-0.18	-0.89
CAST	0.554	-0.609
CCcont	0.021	-0.868
DS01	-0.481	-0.313
DS02	0.734	-0.098
DS04	0.645	-0.257
DS0c	0.903	-0.456
GP01	0.576	-0.752
GP02	-0.276	-1.025
GP0c	0.632	-1.226
NOD	1.84	-0.392
NZO	0.879	-0.247
PWK	0.122	0.098
H37Rv_KO_CtpC	-0.759	-1.118
H37Rv_KO_CtpD	-1.164	-1.473
H37Rv_KO_Rv1272	-1.011	-0.469
H37Rv_KO_SugABC	-0.543	0.11
H37Rv_KO_MbtN	-1.402	-0.511
Trans05	-0.243	-1.015
macrophage_unactivated	-0.439	-1.117
IL1	0.492	-1.272
Rapamycin	0.479	-0.365
Tcell	0.345	-1.153
GMCSF	0.198	-0.481
IFNab	0.414	-1.182
IFNg	0.257	-0.195
IFNg_GMCSF1	-0.176	-1.471
Rv1432_day32	-0.437	-0.086
Rv1565c_day32	-0.34	0.305
secA2_input	0.163	-0.916
delta_Rv3594	0.502	-0.028
delta_Rv3717	0.098	-0.068
delta_Rv3811	0.138	0.315
delta_Rv0954	0.928	1.269
PonA1	1.019	0.173
EccD1_KO	0.76	0.355
EspI_KO	-0.627	-0.108
PE35_KO	0.35	0.703
PPE68_KO	0.195	0.771
glycerol2	0.326	0.398
lignocerate	0.878	1.058
oleate	-0.535	-0.679
phosphatidylcholine	1.2	0.73
acetate	1.406	0.938
glucAc	1.266	0.898
Rv0950ko	1.381	0.332
Rv1096ko	0.811	1.062
Rv3684ko	0.881	0.694
delta_otsA_trehalose	0.974	0.492