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 Rv1350/fabG2:

update plot	correlation	link to info on gene
Rv1574/-	(cc=0.4414)	info on Rv1574/-
Rv2461c/clpP1	(cc=0.4394)	info on Rv2461c/clpP1
Rv3765c/tcrX	(cc=0.4306)	info on Rv3765c/tcrX
Rv2044c/-	(cc=0.4184)	info on Rv2044c/-
Rv2168c/-	(cc=0.4022)	info on Rv2168c/-
Rv2454c/-	(cc=0.3999)	info on Rv2454c/-
Rv1924c/-	(cc=0.395)	info on Rv1924c/-
Rv2267c/-	(cc=0.3906)	info on Rv2267c/-
Rv0698/-	(cc=0.3867)	info on Rv0698/-
Rv2929/-	(cc=0.3739)	info on Rv2929/-

Correlation of Rv1350/fabG2 with Rv1574/-

Normalized LFCs for Rv1350/fabG2:
(description and provenance of datasets)

	Rv1350/fabG2	Rv1574/-
Fe_supp_jason_reseq	0.535	1.146
low_pH_jason_reseq	0.323	0.785
NO_jason_reseq	-1.168	-0.465
B6_jason_reseq	0.297	1.2
MHCII_jason_reseq	-1.007	0.378
Isoniazid02	0.729	0.351
Rifampicin4	0.55	0.341
Ethambutol3	0.632	0.293
Meropenem3	0.506	3.363
Vancomycin16	0.6	0.639
Rv2680_day32	0.161	-1.997
H37Rv_KO_MarP	-0.045	-2.994
hypoxia_3wks	-0.092	0.0
hypoxia_6wks	0.731	0.77
glycerol	-0.976	-1.024
cholesterol	-1.939	-0.475
AJ	1.997	1.585
Bibs02	-2.099	0.725
Bibs02c	-0.041	-0.467
BL6	0.116	2.01
BL6a	0.537	0.227
BXD01	0.931	1.367
BXD010	0.347	1.662
BXD011	0.723	-0.418
BXD03	1.553	0.249
BXD04	0.847	2.507
BXD05	0.444	-0.369
BXD06	0.421	0.765
BXD07	0.223	0.728
BXD08	0.771	1.454
BXD09	0.521	0.109
CAST	-0.284	0.913
CCcont	0.427	1.886
DS01	0.044	0.092
DS02	-0.414	1.297
DS04	1.102	0.357
DS0c	0.834	-1.248
GP01	-0.477	-0.986
GP02	1.057	-0.831
GP0c	0.187	-1.299
NOD	0.74	0.257
NZO	0.0	-1.011
PWK	1.093	-0.644
H37Rv_KO_CtpC	-0.467	-1.623
H37Rv_KO_CtpD	1.335	-0.729
H37Rv_KO_Rv1272	0.027	1.674
H37Rv_KO_SugABC	-0.285	-0.89
H37Rv_KO_MbtN	-1.018	0.38
Trans05	-0.344	0.718
macrophage_unactivated	0.114	1.174
IL1	0.789	1.198
Rapamycin	-0.055	1.142
Tcell	-0.371	0.398
GMCSF	-0.459	1.312
IFNab	0.109	1.318
IFNg	1.096	-0.355
IFNg_GMCSF1	0.0	2.181
Rv1432_day32	3.053	0.18
Rv1565c_day32	-1.772	-3.216
secA2_input	-3.283	-4.156
delta_Rv3594	-0.583	-2.169
delta_Rv3717	-0.479	-4.501
delta_Rv3811	-0.336	-4.497
delta_Rv0954	-0.492	-2.702
PonA1	-0.826	-2.581
EccD1_KO	0.158	0.881
EspI_KO	0.462	1.477
PE35_KO	0.837	1.832
PPE68_KO	0.0	2.4
glycerol2	0.398	2.221
lignocerate	1.433	2.297
oleate	-0.445	-1.704
phosphatidylcholine	1.014	2.004
acetate	1.327	3.401
glucAc	1.202	2.883
Rv0950ko	-0.498	-0.392
Rv1096ko	-0.121	-1.405
Rv3684ko	0.187	1.398
delta_otsA_trehalose	2.128	0.0