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 Rv3373/echA18:

update plot	correlation	link to info on gene
Rv0691c/-	(cc=0.4411)	info on Rv0691c/-
Rv3626c/-	(cc=0.3899)	info on Rv3626c/-
Rv0778/cyp126	(cc=0.3752)	info on Rv0778/cyp126
Rv0146/-	(cc=0.3708)	info on Rv0146/-
Rv0300/vapB2	(cc=0.3696)	info on Rv0300/vapB2
Rv1261c/-	(cc=0.3689)	info on Rv1261c/-
Rv3452/cut4	(cc=0.3634)	info on Rv3452/cut4
Rv0463/-	(cc=0.3626)	info on Rv0463/-
Rv1574/-	(cc=0.3608)	info on Rv1574/-
Rv3741c/-	(cc=0.3605)	info on Rv3741c/-

Correlation of Rv3373/echA18 with Rv3626c/-

Normalized LFCs for Rv3373/echA18:
(description and provenance of datasets)

	Rv3373/echA18	Rv3626c/-
Fe_supp_jason_reseq	1.089	0.434
low_pH_jason_reseq	-2.466	-1.315
NO_jason_reseq	0.475	-0.622
B6_jason_reseq	-1.006	-0.85
MHCII_jason_reseq	-0.077	0.317
Isoniazid02	0.303	-0.383
Rifampicin4	-1.021	-0.533
Ethambutol3	-0.269	0.426
Meropenem3	2.485	-0.295
Vancomycin16	0.202	-0.353
Rv2680_day32	0.499	1.185
H37Rv_KO_MarP	-1.851	0.241
hypoxia_3wks	0.475	-0.566
hypoxia_6wks	-0.954	-0.39
glycerol	-0.211	-0.047
cholesterol	1.444	0.142
AJ	1.914	0.128
Bibs02	1.057	0.359
Bibs02c	0.077	0.226
BL6	0.104	0.314
BL6a	0.722	0.462
BXD01	1.038	0.072
BXD010	-1.92	0.431
BXD011	-0.281	1.433
BXD03	0.232	0.265
BXD04	0.406	1.156
BXD05	0.216	0.486
BXD06	-0.139	-0.195
BXD07	0.517	0.285
BXD08	0.228	0.381
BXD09	0.133	0.289
CAST	0.561	0.319
CCcont	0.037	0.949
DS01	0.575	1.206
DS02	-0.69	1.018
DS04	-0.489	1.134
DS0c	-0.878	0.767
GP01	-1.711	-0.589
GP02	-1.623	-0.329
GP0c	-0.818	-0.472
NOD	-1.572	-0.329
NZO	0.445	-0.069
PWK	-0.831	-0.186
H37Rv_KO_CtpC	-0.384	0.493
H37Rv_KO_CtpD	2.245	1.061
H37Rv_KO_Rv1272	-1.619	-1.054
H37Rv_KO_SugABC	-0.877	-0.392
H37Rv_KO_MbtN	1.805	-0.635
Trans05	-1.195	-0.141
macrophage_unactivated	-0.218	0.47
IL1	-0.05	-0.323
Rapamycin	0.534	-0.08
Tcell	0.518	-0.45
GMCSF	0.536	0.723
IFNab	-0.369	0.762
IFNg	1.088	0.615
IFNg_GMCSF1	-0.053	-0.255
Rv1432_day32	-2.327	-1.228
Rv1565c_day32	-1.802	0.223
secA2_input	-2.264	-0.676
delta_Rv3594	-1.092	-0.185
delta_Rv3717	-3.62	-0.586
delta_Rv3811	-0.922	0.299
delta_Rv0954	-0.751	0.296
PonA1	0.048	1.095
EccD1_KO	0.178	0.822
EspI_KO	0.65	0.684
PE35_KO	0.866	0.729
PPE68_KO	-0.71	0.918
glycerol2	0.129	0.905
lignocerate	-0.304	0.826
oleate	0.658	-0.818
phosphatidylcholine	0.231	0.427
acetate	0.54	1.456
glucAc	-0.923	1.246
Rv0950ko	0.887	1.505
Rv1096ko	1.457	1.538
Rv3684ko	0.92	1.634
delta_otsA_trehalose	-2.912	-0.151