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 Rv2842c/-

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

	Rv2057c/rpmG1	Rv2842c/-
Fe_supp_jason_reseq	-0.66	-3.443
low_pH_jason_reseq	-0.256	1.691
NO_jason_reseq	0.0	1.486
B6_jason_reseq	-0.363	-1.81
MHCII_jason_reseq	-1.175	-2.409
Isoniazid02	1.448	0.156
Rifampicin4	1.917	1.27
Ethambutol3	0.896	1.282
Meropenem3	0.387	-0.289
Vancomycin16	0.703	1.027
Rv2680_day32	0.535	1.583
H37Rv_KO_MarP	-0.169	0.563
hypoxia_3wks	0.092	-1.132
hypoxia_6wks	0.194	-1.879
glycerol	-0.682	-0.184
cholesterol	0.261	-0.132
AJ	0.85	-0.442
Bibs02	-0.67	-0.348
Bibs02c	-0.088	-0.399
BL6	0.821	2.496
BL6a	0.353	3.075
BXD01	0.955	2.362
BXD010	0.586	2.261
BXD011	0.453	2.526
BXD03	0.706	2.982
BXD04	0.657	1.383
BXD05	0.352	2.834
BXD06	0.798	3.053
BXD07	0.445	2.177
BXD08	0.701	3.592
BXD09	0.872	1.44
CAST	0.726	1.458
CCcont	0.098	2.376
DS01	0.332	-0.216
DS02	-0.025	0.0
DS04	0.426	0.707
DS0c	0.124	-0.413
GP01	-0.816	-0.188
GP02	0.615	-0.159
GP0c	-0.969	-0.248
NOD	1.108	-0.205
NZO	0.27	-0.38
PWK	0.445	-0.179
H37Rv_KO_CtpC	0.224	1.957
H37Rv_KO_CtpD	-0.072	0.204
H37Rv_KO_Rv1272	0.414	-0.269
H37Rv_KO_SugABC	0.217	2.45
H37Rv_KO_MbtN	1.553	0.0
Trans05	0.707	1.296
macrophage_unactivated	-0.306	-2.14
IL1	-1.287	-2.791
Rapamycin	-0.129	-1.936
Tcell	0.085	-0.857
GMCSF	0.275	-2.485
IFNab	-0.989	-0.381
IFNg	0.422	-1.446
IFNg_GMCSF1	-0.748	-2.608
Rv1432_day32	0.568	0.0
Rv1565c_day32	-0.616	-0.415
secA2_input	-0.064	1.349
delta_Rv3594	0.615	1.869
delta_Rv3717	0.315	2.815
delta_Rv3811	0.864	3.098
delta_Rv0954	0.868	-1.383
PonA1	0.907	-0.799
EccD1_KO	0.997	2.144
EspI_KO	0.73	2.997
PE35_KO	-0.362	-1.415
PPE68_KO	-0.128	0.47
glycerol2	0.524	-0.82
lignocerate	0.251	0.185
oleate	0.909	-1.202
phosphatidylcholine	0.7	-0.508
acetate	-0.296	1.303
glucAc	-0.626	0.762
Rv0950ko	0.389	-0.482
Rv1096ko	0.486	0.926
Rv3684ko	0.314	2.607
delta_otsA_trehalose	-0.517	0.239