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 Rv0463/-:

update plot	correlation	link to info on gene
Rv2833c/ugpB	(cc=0.5193)	info on Rv2833c/ugpB
Rv1931c/-	(cc=0.5052)	info on Rv1931c/-
Rv2151c/ftsQ	(cc=0.4516)	info on Rv2151c/ftsQ
Rv2251/-	(cc=0.4489)	info on Rv2251/-
Rv1574/-	(cc=0.4478)	info on Rv1574/-
Rv2620c/-	(cc=0.4382)	info on Rv2620c/-
Rv0318c/-	(cc=0.4317)	info on Rv0318c/-
Rv0494/-	(cc=0.4242)	info on Rv0494/-
Rv0728c/serA2	(cc=0.4207)	info on Rv0728c/serA2
Rv2970A/-	(cc=0.4164)	info on Rv2970A/-

Correlation of Rv0463/- with Rv1574/-

Normalized LFCs for Rv0463/-:
(description and provenance of datasets)

	Rv0463/-	Rv1574/-
Fe_supp_jason_reseq	-0.008	1.146
low_pH_jason_reseq	-0.403	0.785
NO_jason_reseq	-0.677	-0.465
B6_jason_reseq	-1.18	1.2
MHCII_jason_reseq	-1.029	0.378
Isoniazid02	0.274	0.351
Rifampicin4	0.246	0.341
Ethambutol3	0.507	0.293
Meropenem3	1.163	3.363
Vancomycin16	0.992	0.639
Rv2680_day32	0.272	-1.997
H37Rv_KO_MarP	0.612	-2.994
hypoxia_3wks	-0.666	0.0
hypoxia_6wks	-0.15	0.77
glycerol	-0.413	-1.024
cholesterol	-1.723	-0.475
AJ	-1.213	1.585
Bibs02	0.762	0.725
Bibs02c	1.006	-0.467
BL6	0.576	2.01
BL6a	0.428	0.227
BXD01	0.418	1.367
BXD010	-0.866	1.662
BXD011	0.7	-0.418
BXD03	-0.718	0.249
BXD04	0.113	2.507
BXD05	0.048	-0.369
BXD06	-0.146	0.765
BXD07	0.137	0.728
BXD08	0.201	1.454
BXD09	0.128	0.109
CAST	-0.022	0.913
CCcont	1.167	1.886
DS01	-0.2	0.092
DS02	0.124	1.297
DS04	-1.698	0.357
DS0c	-1.103	-1.248
GP01	-1.374	-0.986
GP02	-1.038	-0.831
GP0c	-0.652	-1.299
NOD	-1.077	0.257
NZO	0.416	-1.011
PWK	-0.091	-0.644
H37Rv_KO_CtpC	0.014	-1.623
H37Rv_KO_CtpD	-0.982	-0.729
H37Rv_KO_Rv1272	-0.169	1.674
H37Rv_KO_SugABC	-1.953	-0.89
H37Rv_KO_MbtN	-0.343	0.38
Trans05	1.108	0.718
macrophage_unactivated	0.565	1.174
IL1	1.026	1.198
Rapamycin	0.654	1.142
Tcell	1.144	0.398
GMCSF	1.141	1.312
IFNab	1.022	1.318
IFNg	1.053	-0.355
IFNg_GMCSF1	0.305	2.181
Rv1432_day32	-0.43	0.18
Rv1565c_day32	-0.144	-3.216
secA2_input	-0.601	-4.156
delta_Rv3594	-1.196	-2.169
delta_Rv3717	-1.763	-4.501
delta_Rv3811	-0.971	-4.497
delta_Rv0954	-0.994	-2.702
PonA1	-1.825	-2.581
EccD1_KO	-0.335	0.881
EspI_KO	0.927	1.477
PE35_KO	0.808	1.832
PPE68_KO	0.064	2.4
glycerol2	0.977	2.221
lignocerate	0.718	2.297
oleate	0.217	-1.704
phosphatidylcholine	0.462	2.004
acetate	0.903	3.401
glucAc	0.123	2.883
Rv0950ko	1.309	-0.392
Rv1096ko	0.214	-1.405
Rv3684ko	-0.449	1.398
delta_otsA_trehalose	-1.296	0.0