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 Rv0501/galE2:

update plot	correlation	link to info on gene
Rv0502/-	(cc=0.7955)	info on Rv0502/-
Rv2004c/-	(cc=0.6697)	info on Rv2004c/-
Rv2185c/TB16.3	(cc=0.6446)	info on Rv2185c/TB16.3
Rv0924c/mntH	(cc=0.6281)	info on Rv0924c/mntH
Rv0642c/mmaA4	(cc=0.6216)	info on Rv0642c/mmaA4
Rv3166c/-	(cc=0.6028)	info on Rv3166c/-
Rv2134c/-	(cc=0.5949)	info on Rv2134c/-
Rv0989c/grcC2	(cc=0.5834)	info on Rv0989c/grcC2
Rv3050c/-	(cc=0.5712)	info on Rv3050c/-
Rv2184c/-	(cc=0.5601)	info on Rv2184c/-

Correlation of Rv0501/galE2 with Rv0502/-

Normalized LFCs for Rv0501/galE2:
(description and provenance of datasets)

	Rv0501/galE2	Rv0502/-
Fe_supp_jason_reseq	0.819	0.696
low_pH_jason_reseq	0.398	1.318
NO_jason_reseq	0.9	1.78
B6_jason_reseq	-0.603	-0.709
MHCII_jason_reseq	0.81	0.086
Isoniazid02	-0.566	-0.332
Rifampicin4	0.171	0.623
Ethambutol3	-0.632	0.023
Meropenem3	0.232	0.289
Vancomycin16	-1.544	-0.767
Rv2680_day32	0.396	0.065
H37Rv_KO_MarP	0.492	0.608
hypoxia_3wks	0.586	2.544
hypoxia_6wks	0.334	1.639
glycerol	1.084	1.066
cholesterol	0.87	0.715
AJ	0.961	0.904
Bibs02	-0.725	0.199
Bibs02c	0.706	0.059
BL6	0.671	1.258
BL6a	1.462	2.429
BXD01	1.68	2.883
BXD010	0.367	2.113
BXD011	0.832	2.075
BXD03	0.843	1.244
BXD04	0.896	2.334
BXD05	0.688	2.061
BXD06	1.106	2.32
BXD07	1.499	2.325
BXD08	0.999	1.898
BXD09	1.5	2.995
CAST	-0.609	-0.771
CCcont	1.284	2.029
DS01	0.934	0.489
DS02	0.088	0.55
DS04	0.749	1.216
DS0c	1.384	0.823
GP01	1.371	1.933
GP02	1.485	1.699
GP0c	1.012	1.132
NOD	0.846	-0.236
NZO	-0.231	0.267
PWK	-0.352	-1.037
H37Rv_KO_CtpC	-0.214	0.198
H37Rv_KO_CtpD	1.254	1.721
H37Rv_KO_Rv1272	1.287	2.664
H37Rv_KO_SugABC	0.579	1.635
H37Rv_KO_MbtN	1.465	2.769
Trans05	1.139	3.129
macrophage_unactivated	1.102	1.49
IL1	-0.896	-1.797
Rapamycin	0.203	-0.166
Tcell	0.661	1.411
GMCSF	0.174	-0.23
IFNab	0.278	0.623
IFNg	0.107	-0.676
IFNg_GMCSF1	0.248	-0.38
Rv1432_day32	0.759	2.034
Rv1565c_day32	-0.618	-1.219
secA2_input	-0.391	-0.471
delta_Rv3594	-0.349	0.74
delta_Rv3717	0.323	1.886
delta_Rv3811	-0.379	1.108
delta_Rv0954	-1.056	-1.868
PonA1	-1.075	-1.487
EccD1_KO	-0.585	-1.075
EspI_KO	1.001	-0.613
PE35_KO	-0.061	-1.654
PPE68_KO	-0.24	-1.494
glycerol2	0.205	0.551
lignocerate	-0.18	-0.111
oleate	-0.398	0.801
phosphatidylcholine	-0.636	-0.419
acetate	0.289	0.284
glucAc	-0.365	0.006
Rv0950ko	-1.004	-1.01
Rv1096ko	-1.496	-1.439
Rv3684ko	-1.091	-1.061
delta_otsA_trehalose	-0.199	-0.207