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 Rv0477/-:

update plot	correlation	link to info on gene
Rv0144/-	(cc=0.5603)	info on Rv0144/-
Rv3218/-	(cc=0.518)	info on Rv3218/-
Rv2695/-	(cc=0.517)	info on Rv2695/-
Rv2263/-	(cc=0.4942)	info on Rv2263/-
Rv0194/-	(cc=0.4859)	info on Rv0194/-
Rv3840/-	(cc=0.4834)	info on Rv3840/-
Rv0122/-	(cc=0.4829)	info on Rv0122/-
Rv1506c/-	(cc=0.4686)	info on Rv1506c/-
Rv1513/-	(cc=0.4679)	info on Rv1513/-
Rv0217c/lipW	(cc=0.4668)	info on Rv0217c/lipW

Correlation of Rv0477/- with Rv3218/-

Normalized LFCs for Rv0477/-:
(description and provenance of datasets)

	Rv0477/-	Rv3218/-
Fe_supp_jason_reseq	0.098	0.069
low_pH_jason_reseq	-1.051	0.626
NO_jason_reseq	-0.512	-0.039
B6_jason_reseq	0.415	0.103
MHCII_jason_reseq	0.42	-0.977
Isoniazid02	-0.506	-0.997
Rifampicin4	-0.073	-0.479
Ethambutol3	-0.427	-0.966
Meropenem3	-0.14	-0.543
Vancomycin16	-0.554	-1.167
Rv2680_day32	-0.178	0.234
H37Rv_KO_MarP	0.302	0.319
hypoxia_3wks	0.267	0.502
hypoxia_6wks	-0.125	0.833
glycerol	-0.471	-0.357
cholesterol	0.363	0.85
AJ	-0.195	-0.338
Bibs02	-0.162	0.211
Bibs02c	0.841	0.317
BL6	-0.034	1.984
BL6a	0.647	1.934
BXD01	0.627	2.36
BXD010	0.095	2.075
BXD011	0.711	2.479
BXD03	-0.379	1.262
BXD04	0.398	2.489
BXD05	0.071	2.15
BXD06	0.456	2.326
BXD07	0.236	2.605
BXD08	0.474	1.872
BXD09	0.305	2.198
CAST	0.035	-0.299
CCcont	-0.677	0.557
DS01	0.236	-0.2
DS02	0.383	0.225
DS04	0.856	0.51
DS0c	0.426	0.303
GP01	1.27	1.142
GP02	1.634	1.904
GP0c	0.372	1.108
NOD	-0.802	-0.586
NZO	0.993	1.334
PWK	0.577	1.225
H37Rv_KO_CtpC	0.751	0.148
H37Rv_KO_CtpD	0.718	1.334
H37Rv_KO_Rv1272	-0.634	1.52
H37Rv_KO_SugABC	0.701	1.485
H37Rv_KO_MbtN	1.493	2.303
Trans05	0.698	1.743
macrophage_unactivated	-0.347	-0.628
IL1	-0.193	0.561
Rapamycin	-0.479	0.822
Tcell	-0.345	0.075
GMCSF	0.33	0.906
IFNab	0.278	0.045
IFNg	0.102	0.43
IFNg_GMCSF1	0.236	-0.487
Rv1432_day32	0.275	0.963
Rv1565c_day32	-0.742	-0.682
secA2_input	0.358	0.848
delta_Rv3594	-0.107	-0.846
delta_Rv3717	-0.133	0.467
delta_Rv3811	-0.671	-0.464
delta_Rv0954	-0.721	-0.783
PonA1	-1.163	-0.658
EccD1_KO	0.082	-0.516
EspI_KO	0.274	-1.144
PE35_KO	-0.866	-0.487
PPE68_KO	-0.49	-1.245
glycerol2	-0.017	-0.859
lignocerate	-0.809	-1.679
oleate	0.768	-1.16
phosphatidylcholine	-0.51	-1.931
acetate	-1.049	-0.6
glucAc	-2.238	-0.508
Rv0950ko	1.155	0.286
Rv1096ko	0.166	0.0
Rv3684ko	0.868	0.743
delta_otsA_trehalose	0.487	2.083