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 Rv2970A/-

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

	Rv0463/-	Rv2970A/-
Fe_supp_jason_reseq	-0.008	1.023
low_pH_jason_reseq	-0.403	0.835
NO_jason_reseq	-0.677	-0.572
B6_jason_reseq	-1.18	0.598
MHCII_jason_reseq	-1.029	-1.115
Isoniazid02	0.274	2.002
Rifampicin4	0.246	0.409
Ethambutol3	0.507	5.696
Meropenem3	1.163	0.444
Vancomycin16	0.992	0.846
Rv2680_day32	0.272	0.715
H37Rv_KO_MarP	0.612	0.968
hypoxia_3wks	-0.666	-0.778
hypoxia_6wks	-0.15	0.766
glycerol	-0.413	-0.389
cholesterol	-1.723	0.184
AJ	-1.213	-1.704
Bibs02	0.762	-1.269
Bibs02c	1.006	0.303
BL6	0.576	3.312
BL6a	0.428	2.184
BXD01	0.418	2.485
BXD010	-0.866	1.936
BXD011	0.7	2.424
BXD03	-0.718	2.181
BXD04	0.113	1.689
BXD05	0.048	3.209
BXD06	-0.146	2.483
BXD07	0.137	2.987
BXD08	0.201	1.885
BXD09	0.128	2.328
CAST	-0.022	0.699
CCcont	1.167	2.221
DS01	-0.2	0.527
DS02	0.124	-0.866
DS04	-1.698	-1.196
DS0c	-1.103	-0.735
GP01	-1.374	-1.621
GP02	-1.038	-1.116
GP0c	-0.652	-0.156
NOD	-1.077	1.051
NZO	0.416	-0.62
PWK	-0.091	0.118
H37Rv_KO_CtpC	0.014	0.293
H37Rv_KO_CtpD	-0.982	0.051
H37Rv_KO_Rv1272	-0.169	0.802
H37Rv_KO_SugABC	-1.953	-0.749
H37Rv_KO_MbtN	-0.343	1.533
Trans05	1.108	0.0
macrophage_unactivated	0.565	1.414
IL1	1.026	1.706
Rapamycin	0.654	0.482
Tcell	1.144	0.577
GMCSF	1.141	0.304
IFNab	1.022	1.684
IFNg	1.053	0.318
IFNg_GMCSF1	0.305	0.657
Rv1432_day32	-0.43	0.0
Rv1565c_day32	-0.144	-0.599
secA2_input	-0.601	2.779
delta_Rv3594	-1.196	-0.672
delta_Rv3717	-1.763	-0.248
delta_Rv3811	-0.971	-0.822
delta_Rv0954	-0.994	-2.417
PonA1	-1.825	0.0
EccD1_KO	-0.335	0.099
EspI_KO	0.927	-0.89
PE35_KO	0.808	0.058
PPE68_KO	0.064	-0.032
glycerol2	0.977	0.835
lignocerate	0.718	2.012
oleate	0.217	0.434
phosphatidylcholine	0.462	1.303
acetate	0.903	1.652
glucAc	0.123	1.092
Rv0950ko	1.309	0.823
Rv1096ko	0.214	-0.106
Rv3684ko	-0.449	-1.323
delta_otsA_trehalose	-1.296	-1.271