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 Rv1523/-

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

	Rv2057c/rpmG1	Rv1523/-
Fe_supp_jason_reseq	-0.66	-0.32
low_pH_jason_reseq	-0.256	-0.472
NO_jason_reseq	0.0	-0.165
B6_jason_reseq	-0.363	0.012
MHCII_jason_reseq	-1.175	-0.193
Isoniazid02	1.448	0.0
Rifampicin4	1.917	0.487
Ethambutol3	0.896	1.065
Meropenem3	0.387	-0.115
Vancomycin16	0.703	-0.125
Rv2680_day32	0.535	0.366
H37Rv_KO_MarP	-0.169	0.172
hypoxia_3wks	0.092	0.391
hypoxia_6wks	0.194	-0.035
glycerol	-0.682	-1.099
cholesterol	0.261	-0.695
AJ	0.85	0.486
Bibs02	-0.67	-0.428
Bibs02c	-0.088	-0.744
BL6	0.821	0.159
BL6a	0.353	-0.079
BXD01	0.955	0.04
BXD010	0.586	-0.293
BXD011	0.453	-0.334
BXD03	0.706	-0.49
BXD04	0.657	-0.324
BXD05	0.352	0.348
BXD06	0.798	-0.365
BXD07	0.445	-0.519
BXD08	0.701	-0.066
BXD09	0.872	-0.122
CAST	0.726	0.06
CCcont	0.098	-0.374
DS01	0.332	0.217
DS02	-0.025	-0.128
DS04	0.426	-0.104
DS0c	0.124	-0.086
GP01	-0.816	0.214
GP02	0.615	-0.497
GP0c	-0.969	-0.011
NOD	1.108	0.151
NZO	0.27	0.692
PWK	0.445	-0.105
H37Rv_KO_CtpC	0.224	-0.141
H37Rv_KO_CtpD	-0.072	0.261
H37Rv_KO_Rv1272	0.414	-0.032
H37Rv_KO_SugABC	0.217	0.554
H37Rv_KO_MbtN	1.553	0.193
Trans05	0.707	0.328
macrophage_unactivated	-0.306	0.164
IL1	-1.287	-0.792
Rapamycin	-0.129	-0.292
Tcell	0.085	-0.355
GMCSF	0.275	-0.327
IFNab	-0.989	-0.505
IFNg	0.422	-0.053
IFNg_GMCSF1	-0.748	-0.192
Rv1432_day32	0.568	0.546
Rv1565c_day32	-0.616	0.163
secA2_input	-0.064	-0.531
delta_Rv3594	0.615	0.259
delta_Rv3717	0.315	0.0
delta_Rv3811	0.864	0.378
delta_Rv0954	0.868	0.229
PonA1	0.907	0.615
EccD1_KO	0.997	0.714
EspI_KO	0.73	0.023
PE35_KO	-0.362	0.117
PPE68_KO	-0.128	0.176
glycerol2	0.524	0.789
lignocerate	0.251	0.276
oleate	0.909	1.099
phosphatidylcholine	0.7	0.769
acetate	-0.296	-0.75
glucAc	-0.626	-0.142
Rv0950ko	0.389	0.1
Rv1096ko	0.486	-0.229
Rv3684ko	0.314	-0.157
delta_otsA_trehalose	-0.517	-0.656