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 Rv0318c/-

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

	Rv0463/-	Rv0318c/-
Fe_supp_jason_reseq	-0.008	0.058
low_pH_jason_reseq	-0.403	1.265
NO_jason_reseq	-0.677	0.144
B6_jason_reseq	-1.18	-0.141
MHCII_jason_reseq	-1.029	0.08
Isoniazid02	0.274	0.116
Rifampicin4	0.246	-0.097
Ethambutol3	0.507	-0.294
Meropenem3	1.163	1.397
Vancomycin16	0.992	0.271
Rv2680_day32	0.272	1.305
H37Rv_KO_MarP	0.612	0.787
hypoxia_3wks	-0.666	-0.116
hypoxia_6wks	-0.15	-0.783
glycerol	-0.413	-0.721
cholesterol	-1.723	-0.642
AJ	-1.213	0.247
Bibs02	0.762	0.269
Bibs02c	1.006	0.864
BL6	0.576	0.494
BL6a	0.428	-0.293
BXD01	0.418	0.745
BXD010	-0.866	0.353
BXD011	0.7	0.485
BXD03	-0.718	0.472
BXD04	0.113	-0.613
BXD05	0.048	-0.419
BXD06	-0.146	0.249
BXD07	0.137	0.138
BXD08	0.201	-0.28
BXD09	0.128	0.381
CAST	-0.022	0.299
CCcont	1.167	0.656
DS01	-0.2	0.414
DS02	0.124	0.083
DS04	-1.698	-0.363
DS0c	-1.103	-0.24
GP01	-1.374	-0.762
GP02	-1.038	-0.281
GP0c	-0.652	-0.644
NOD	-1.077	0.304
NZO	0.416	1.188
PWK	-0.091	0.449
H37Rv_KO_CtpC	0.014	0.192
H37Rv_KO_CtpD	-0.982	0.186
H37Rv_KO_Rv1272	-0.169	-0.504
H37Rv_KO_SugABC	-1.953	1.097
H37Rv_KO_MbtN	-0.343	-0.74
Trans05	1.108	0.286
macrophage_unactivated	0.565	1.345
IL1	1.026	0.258
Rapamycin	0.654	0.789
Tcell	1.144	1.362
GMCSF	1.141	0.628
IFNab	1.022	1.055
IFNg	1.053	0.861
IFNg_GMCSF1	0.305	0.927
Rv1432_day32	-0.43	1.232
Rv1565c_day32	-0.144	-0.145
secA2_input	-0.601	-0.147
delta_Rv3594	-1.196	-0.589
delta_Rv3717	-1.763	-0.692
delta_Rv3811	-0.971	-0.744
delta_Rv0954	-0.994	-0.327
PonA1	-1.825	0.501
EccD1_KO	-0.335	-0.25
EspI_KO	0.927	-0.24
PE35_KO	0.808	-0.047
PPE68_KO	0.064	0.0
glycerol2	0.977	1.264
lignocerate	0.718	1.684
oleate	0.217	0.88
phosphatidylcholine	0.462	1.401
acetate	0.903	1.295
glucAc	0.123	1.056
Rv0950ko	1.309	-0.627
Rv1096ko	0.214	-0.54
Rv3684ko	-0.449	-0.196
delta_otsA_trehalose	-1.296	-0.035