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 Rv2536/-

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

	Rv2057c/rpmG1	Rv2536/-
Fe_supp_jason_reseq	-0.66	-0.09
low_pH_jason_reseq	-0.256	-0.166
NO_jason_reseq	0.0	1.147
B6_jason_reseq	-0.363	-1.389
MHCII_jason_reseq	-1.175	-1.901
Isoniazid02	1.448	-0.332
Rifampicin4	1.917	1.776
Ethambutol3	0.896	0.124
Meropenem3	0.387	0.998
Vancomycin16	0.703	2.21
Rv2680_day32	0.535	-0.506
H37Rv_KO_MarP	-0.169	-1.514
hypoxia_3wks	0.092	0.367
hypoxia_6wks	0.194	0.468
glycerol	-0.682	1.393
cholesterol	0.261	0.961
AJ	0.85	0.568
Bibs02	-0.67	0.405
Bibs02c	-0.088	-1.435
BL6	0.821	1.279
BL6a	0.353	-0.248
BXD01	0.955	0.627
BXD010	0.586	0.774
BXD011	0.453	0.916
BXD03	0.706	0.966
BXD04	0.657	2.174
BXD05	0.352	1.31
BXD06	0.798	1.043
BXD07	0.445	1.114
BXD08	0.701	0.416
BXD09	0.872	0.786
CAST	0.726	-0.165
CCcont	0.098	0.5
DS01	0.332	-0.245
DS02	-0.025	0.124
DS04	0.426	0.038
DS0c	0.124	-1.18
GP01	-0.816	-0.818
GP02	0.615	-1.542
GP0c	-0.969	-0.507
NOD	1.108	1.217
NZO	0.27	0.152
PWK	0.445	-0.793
H37Rv_KO_CtpC	0.224	0.667
H37Rv_KO_CtpD	-0.072	0.708
H37Rv_KO_Rv1272	0.414	1.673
H37Rv_KO_SugABC	0.217	2.392
H37Rv_KO_MbtN	1.553	1.121
Trans05	0.707	0.984
macrophage_unactivated	-0.306	-1.6
IL1	-1.287	-0.789
Rapamycin	-0.129	-0.577
Tcell	0.085	-0.707
GMCSF	0.275	-1.009
IFNab	-0.989	-1.427
IFNg	0.422	-0.136
IFNg_GMCSF1	-0.748	-0.5
Rv1432_day32	0.568	-0.875
Rv1565c_day32	-0.616	-0.534
secA2_input	-0.064	-0.542
delta_Rv3594	0.615	0.668
delta_Rv3717	0.315	0.773
delta_Rv3811	0.864	0.0
delta_Rv0954	0.868	0.266
PonA1	0.907	1.278
EccD1_KO	0.997	0.171
EspI_KO	0.73	0.026
PE35_KO	-0.362	0.578
PPE68_KO	-0.128	0.608
glycerol2	0.524	-1.094
lignocerate	0.251	-0.268
oleate	0.909	0.299
phosphatidylcholine	0.7	0.773
acetate	-0.296	0.249
glucAc	-0.626	0.462
Rv0950ko	0.389	0.461
Rv1096ko	0.486	0.335
Rv3684ko	0.314	0.124
delta_otsA_trehalose	-0.517	-0.014