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 Rv1574/-

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

	Rv3373/echA18	Rv1574/-
Fe_supp_jason_reseq	1.089	1.146
low_pH_jason_reseq	-2.466	0.785
NO_jason_reseq	0.475	-0.465
B6_jason_reseq	-1.006	1.2
MHCII_jason_reseq	-0.077	0.378
Isoniazid02	0.303	0.351
Rifampicin4	-1.021	0.341
Ethambutol3	-0.269	0.293
Meropenem3	2.485	3.363
Vancomycin16	0.202	0.639
Rv2680_day32	0.499	-1.997
H37Rv_KO_MarP	-1.851	-2.994
hypoxia_3wks	0.475	0.0
hypoxia_6wks	-0.954	0.77
glycerol	-0.211	-1.024
cholesterol	1.444	-0.475
AJ	1.914	1.585
Bibs02	1.057	0.725
Bibs02c	0.077	-0.467
BL6	0.104	2.01
BL6a	0.722	0.227
BXD01	1.038	1.367
BXD010	-1.92	1.662
BXD011	-0.281	-0.418
BXD03	0.232	0.249
BXD04	0.406	2.507
BXD05	0.216	-0.369
BXD06	-0.139	0.765
BXD07	0.517	0.728
BXD08	0.228	1.454
BXD09	0.133	0.109
CAST	0.561	0.913
CCcont	0.037	1.886
DS01	0.575	0.092
DS02	-0.69	1.297
DS04	-0.489	0.357
DS0c	-0.878	-1.248
GP01	-1.711	-0.986
GP02	-1.623	-0.831
GP0c	-0.818	-1.299
NOD	-1.572	0.257
NZO	0.445	-1.011
PWK	-0.831	-0.644
H37Rv_KO_CtpC	-0.384	-1.623
H37Rv_KO_CtpD	2.245	-0.729
H37Rv_KO_Rv1272	-1.619	1.674
H37Rv_KO_SugABC	-0.877	-0.89
H37Rv_KO_MbtN	1.805	0.38
Trans05	-1.195	0.718
macrophage_unactivated	-0.218	1.174
IL1	-0.05	1.198
Rapamycin	0.534	1.142
Tcell	0.518	0.398
GMCSF	0.536	1.312
IFNab	-0.369	1.318
IFNg	1.088	-0.355
IFNg_GMCSF1	-0.053	2.181
Rv1432_day32	-2.327	0.18
Rv1565c_day32	-1.802	-3.216
secA2_input	-2.264	-4.156
delta_Rv3594	-1.092	-2.169
delta_Rv3717	-3.62	-4.501
delta_Rv3811	-0.922	-4.497
delta_Rv0954	-0.751	-2.702
PonA1	0.048	-2.581
EccD1_KO	0.178	0.881
EspI_KO	0.65	1.477
PE35_KO	0.866	1.832
PPE68_KO	-0.71	2.4
glycerol2	0.129	2.221
lignocerate	-0.304	2.297
oleate	0.658	-1.704
phosphatidylcholine	0.231	2.004
acetate	0.54	3.401
glucAc	-0.923	2.883
Rv0950ko	0.887	-0.392
Rv1096ko	1.457	-1.405
Rv3684ko	0.92	1.398
delta_otsA_trehalose	-2.912	0.0