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 Rv2802c/-

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

	Rv1377c/-	Rv2802c/-
Fe_supp_jason_reseq	1.35	0.103
low_pH_jason_reseq	-0.952	-0.356
NO_jason_reseq	0.042	0.197
B6_jason_reseq	-0.018	-0.83
MHCII_jason_reseq	0.206	0.351
Isoniazid02	0.658	0.389
Rifampicin4	0.81	1.332
Ethambutol3	0.209	0.901
Meropenem3	0.987	0.944
Vancomycin16	1.035	0.658
Rv2680_day32	0.142	0.848
H37Rv_KO_MarP	0.323	-0.313
hypoxia_3wks	-0.574	-0.881
hypoxia_6wks	-0.819	-0.274
glycerol	0.496	1.284
cholesterol	0.857	1.044
AJ	0.032	0.548
Bibs02	0.617	0.791
Bibs02c	-0.462	-0.073
BL6	-0.465	0.275
BL6a	0.0	-0.773
BXD01	0.335	-0.036
BXD010	0.071	-0.118
BXD011	-0.185	-0.629
BXD03	0.278	-0.217
BXD04	-0.524	-0.377
BXD05	-0.5	0.948
BXD06	0.083	-0.153
BXD07	0.14	-0.314
BXD08	0.281	-0.358
BXD09	-0.18	-0.009
CAST	0.554	0.092
CCcont	0.021	0.564
DS01	-0.481	0.881
DS02	0.734	0.758
DS04	0.645	1.345
DS0c	0.903	-0.437
GP01	0.576	0.606
GP02	-0.276	0.95
GP0c	0.632	0.603
NOD	1.84	-0.854
NZO	0.879	-0.169
PWK	0.122	0.091
H37Rv_KO_CtpC	-0.759	-0.438
H37Rv_KO_CtpD	-1.164	-0.035
H37Rv_KO_Rv1272	-1.011	-0.947
H37Rv_KO_SugABC	-0.543	0.15
H37Rv_KO_MbtN	-1.402	-0.85
Trans05	-0.243	0.792
macrophage_unactivated	-0.439	0.96
IL1	0.492	1.264
Rapamycin	0.479	0.104
Tcell	0.345	0.055
GMCSF	0.198	-0.65
IFNab	0.414	0.051
IFNg	0.257	0.313
IFNg_GMCSF1	-0.176	-0.55
Rv1432_day32	-0.437	-0.398
Rv1565c_day32	-0.34	-1.69
secA2_input	0.163	0.348
delta_Rv3594	0.502	-0.278
delta_Rv3717	0.098	0.448
delta_Rv3811	0.138	0.174
delta_Rv0954	0.928	0.265
PonA1	1.019	1.03
EccD1_KO	0.76	1.197
EspI_KO	-0.627	0.448
PE35_KO	0.35	0.102
PPE68_KO	0.195	1.075
glycerol2	0.326	2.393
lignocerate	0.878	3.377
oleate	-0.535	-0.216
phosphatidylcholine	1.2	2.644
acetate	1.406	3.536
glucAc	1.266	2.965
Rv0950ko	1.381	0.389
Rv1096ko	0.811	0.455
Rv3684ko	0.881	1.287
delta_otsA_trehalose	0.974	0.61