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 Rv2057c/rpmG1:

update plot	correlation	link to info on gene
Rv1523/-	(cc=0.4535)	info on Rv1523/-
Rv2536/-	(cc=0.4473)	info on Rv2536/-
Rv2456c/-	(cc=0.4419)	info on Rv2456c/-
Rv0877/-	(cc=0.4412)	info on Rv0877/-
Rv2842c/-	(cc=0.4336)	info on Rv2842c/-
Rv3509c/ilvX	(cc=0.4331)	info on Rv3509c/ilvX
Rv0508/-	(cc=0.432)	info on Rv0508/-
Rv1105/-	(cc=0.4308)	info on Rv1105/-
Rv1215c/-	(cc=0.4257)	info on Rv1215c/-
Rv1960c/parD1	(cc=0.4209)	info on Rv1960c/parD1

Correlation of Rv2057c/rpmG1 with Rv3509c/ilvX

Normalized LFCs for Rv2057c/rpmG1:
(description and provenance of datasets)

	Rv2057c/rpmG1	Rv3509c/ilvX
Fe_supp_jason_reseq	-0.66	-0.081
low_pH_jason_reseq	-0.256	-0.375
NO_jason_reseq	0.0	-0.257
B6_jason_reseq	-0.363	0.367
MHCII_jason_reseq	-1.175	0.362
Isoniazid02	1.448	1.147
Rifampicin4	1.917	0.55
Ethambutol3	0.896	0.899
Meropenem3	0.387	0.328
Vancomycin16	0.703	0.727
Rv2680_day32	0.535	-0.207
H37Rv_KO_MarP	-0.169	0.302
hypoxia_3wks	0.092	-0.104
hypoxia_6wks	0.194	-0.355
glycerol	-0.682	0.699
cholesterol	0.261	0.869
AJ	0.85	0.282
Bibs02	-0.67	0.34
Bibs02c	-0.088	0.45
BL6	0.821	0.502
BL6a	0.353	0.458
BXD01	0.955	0.516
BXD010	0.586	0.03
BXD011	0.453	0.68
BXD03	0.706	0.047
BXD04	0.657	0.408
BXD05	0.352	-0.064
BXD06	0.798	0.39
BXD07	0.445	0.174
BXD08	0.701	-0.011
BXD09	0.872	0.126
CAST	0.726	0.207
CCcont	0.098	-0.281
DS01	0.332	0.409
DS02	-0.025	0.28
DS04	0.426	0.835
DS0c	0.124	0.594
GP01	-0.816	-0.119
GP02	0.615	-0.02
GP0c	-0.969	-0.314
NOD	1.108	0.714
NZO	0.27	-0.048
PWK	0.445	0.415
H37Rv_KO_CtpC	0.224	-0.006
H37Rv_KO_CtpD	-0.072	0.044
H37Rv_KO_Rv1272	0.414	0.167
H37Rv_KO_SugABC	0.217	0.471
H37Rv_KO_MbtN	1.553	0.257
Trans05	0.707	0.094
macrophage_unactivated	-0.306	-0.732
IL1	-1.287	-0.602
Rapamycin	-0.129	-0.868
Tcell	0.085	-0.459
GMCSF	0.275	-0.428
IFNab	-0.989	-0.856
IFNg	0.422	-0.877
IFNg_GMCSF1	-0.748	0.226
Rv1432_day32	0.568	0.756
Rv1565c_day32	-0.616	0.175
secA2_input	-0.064	-0.189
delta_Rv3594	0.615	0.783
delta_Rv3717	0.315	0.039
delta_Rv3811	0.864	0.651
delta_Rv0954	0.868	0.915
PonA1	0.907	0.743
EccD1_KO	0.997	0.072
EspI_KO	0.73	-0.125
PE35_KO	-0.362	-0.064
PPE68_KO	-0.128	-0.384
glycerol2	0.524	-0.174
lignocerate	0.251	-0.358
oleate	0.909	-0.33
phosphatidylcholine	0.7	-0.209
acetate	-0.296	-0.849
glucAc	-0.626	-0.171
Rv0950ko	0.389	0.612
Rv1096ko	0.486	0.953
Rv3684ko	0.314	0.4
delta_otsA_trehalose	-0.517	-0.209