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 Rv0990c/-:

update plot	correlation	link to info on gene
Rv2505c/fadD35	(cc=0.5406)	info on Rv2505c/fadD35
Rv2201/asnB	(cc=0.5083)	info on Rv2201/asnB
Rv3519/-	(cc=0.5039)	info on Rv3519/-
Rv1023/eno	(cc=0.4838)	info on Rv1023/eno
Rv2063/mazE7	(cc=0.4697)	info on Rv2063/mazE7
Rv1711/-	(cc=0.4576)	info on Rv1711/-
Rv3032/-	(cc=0.4449)	info on Rv3032/-
Rv2581c/-	(cc=0.4434)	info on Rv2581c/-
Rv2169c/-	(cc=0.4408)	info on Rv2169c/-
Rv0130/htdZ	(cc=0.4354)	info on Rv0130/htdZ

Correlation of Rv0990c/- with Rv3032/-

Normalized LFCs for Rv0990c/-:
(description and provenance of datasets)

	Rv0990c/-	Rv3032/-
Fe_supp_jason_reseq	-1.389	0.0
low_pH_jason_reseq	0.683	0.0
NO_jason_reseq	-0.499	0.0
B6_jason_reseq	0.178	0.0
MHCII_jason_reseq	0.942	0.0
Isoniazid02	-0.138	0.0
Rifampicin4	-0.455	0.0
Ethambutol3	0.315	0.0
Meropenem3	0.359	0.0
Vancomycin16	-0.066	0.0
Rv2680_day32	-0.444	0.249
H37Rv_KO_MarP	-0.179	-0.151
hypoxia_3wks	-0.514	0.0
hypoxia_6wks	-0.963	0.0
glycerol	0.19	0.0
cholesterol	-0.302	0.0
AJ	0.459	0.0
Bibs02	-0.261	0.0
Bibs02c	-0.605	0.0
BL6	0.157	0.0
BL6a	0.082	0.0
BXD01	-0.413	0.0
BXD010	0.199	0.0
BXD011	0.476	0.0
BXD03	-0.204	0.0
BXD04	-0.837	0.0
BXD05	-0.757	0.0
BXD06	-0.475	0.0
BXD07	-0.338	0.0
BXD08	-0.312	0.0
BXD09	-0.472	0.0
CAST	-0.582	0.0
CCcont	-0.312	0.285
DS01	0.311	0.0
DS02	0.624	0.0
DS04	0.514	0.0
DS0c	0.679	0.0
GP01	0.16	0.0
GP02	0.23	0.0
GP0c	0.479	0.0
NOD	0.225	0.0
NZO	1.087	0.0
PWK	0.014	0.0
H37Rv_KO_CtpC	0.244	0.0
H37Rv_KO_CtpD	0.22	0.0
H37Rv_KO_Rv1272	-0.271	0.0
H37Rv_KO_SugABC	0.403	0.0
H37Rv_KO_MbtN	0.579	0.0
Trans05	0.947	0.0
macrophage_unactivated	0.06	0.0
IL1	0.762	0.0
Rapamycin	0.737	0.0
Tcell	-0.714	0.0
GMCSF	-0.293	0.0
IFNab	0.284	0.0
IFNg	0.102	0.0
IFNg_GMCSF1	-0.06	0.0
Rv1432_day32	-0.227	0.0
Rv1565c_day32	-0.066	0.0
secA2_input	-0.285	0.806
delta_Rv3594	-1.386	0.402
delta_Rv3717	-1.475	0.331
delta_Rv3811	-2.195	0.0
delta_Rv0954	-0.282	0.49
PonA1	-0.136	0.0
EccD1_KO	1.901	0.378
EspI_KO	2.935	3.18
PE35_KO	0.974	2.739
PPE68_KO	1.312	1.872
glycerol2	-1.819	0.0
lignocerate	-0.437	0.0
oleate	-0.486	0.0
phosphatidylcholine	-0.916	0.0
acetate	0.06	0.0
glucAc	-0.716	0.0
Rv0950ko	-0.223	0.0
Rv1096ko	-0.362	0.347
Rv3684ko	0.452	1.055
delta_otsA_trehalose	-0.111	1.151