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 Rv3022A/PE29:

update plot	correlation	link to info on gene
Rv2543/lppA	(cc=0.5866)	info on Rv2543/lppA
Rv1396c/PE_PGRS25	(cc=0.548)	info on Rv1396c/PE_PGRS25
Rv0526/-	(cc=0.5258)	info on Rv0526/-
Rv2519/PE26	(cc=0.5243)	info on Rv2519/PE26
Rv1173/fbiC	(cc=0.5135)	info on Rv1173/fbiC
Rv2807/-	(cc=0.5131)	info on Rv2807/-
Rv1067c/PE_PGRS19	(cc=0.5123)	info on Rv1067c/PE_PGRS19
Rv1918c/PPE35	(cc=0.5079)	info on Rv1918c/PPE35
Rv3023c/-	(cc=0.5041)	info on Rv3023c/-
Rv1047/-	(cc=0.5)	info on Rv1047/-

Correlation of Rv3022A/PE29 with Rv0526/-

Normalized LFCs for Rv3022A/PE29:
(description and provenance of datasets)

	Rv3022A/PE29	Rv0526/-
Fe_supp_jason_reseq	0.275	0.0
low_pH_jason_reseq	-0.381	0.0
NO_jason_reseq	-0.709	0.0
B6_jason_reseq	-0.585	0.0
MHCII_jason_reseq	-0.709	0.0
Isoniazid02	0.994	0.0
Rifampicin4	0.967	0.0
Ethambutol3	0.434	0.0
Meropenem3	0.291	0.0
Vancomycin16	0.594	0.0
Rv2680_day32	-0.826	0.0
H37Rv_KO_MarP	0.165	0.0
hypoxia_3wks	0.347	0.0
hypoxia_6wks	-0.81	0.0
glycerol	0.73	0.0
cholesterol	1.146	0.0
AJ	2.274	0.0
Bibs02	0.167	0.0
Bibs02c	0.893	0.0
BL6	0.569	0.0
BL6a	0.641	0.0
BXD01	0.898	0.0
BXD010	0.456	0.0
BXD011	0.286	0.0
BXD03	0.216	0.0
BXD04	0.063	0.0
BXD05	0.775	0.0
BXD06	0.593	0.0
BXD07	0.93	0.0
BXD08	0.28	0.0
BXD09	0.383	0.0
CAST	1.099	0.0
CCcont	1.022	0.0
DS01	0.883	0.0
DS02	0.745	0.0
DS04	0.748	0.0
DS0c	-0.019	0.0
GP01	0.72	0.0
GP02	0.311	0.0
GP0c	0.208	0.0
NOD	0.919	0.0
NZO	-0.088	0.0
PWK	0.494	0.0
H37Rv_KO_CtpC	1.553	0.0
H37Rv_KO_CtpD	1.287	0.0
H37Rv_KO_Rv1272	2.221	0.0
H37Rv_KO_SugABC	0.898	0.0
H37Rv_KO_MbtN	0.687	0.0
Trans05	1.378	0.0
macrophage_unactivated	0.767	0.0
IL1	0.039	0.0
Rapamycin	0.264	0.0
Tcell	0.525	0.0
GMCSF	1.333	0.0
IFNab	0.768	0.0
IFNg	0.083	0.0
IFNg_GMCSF1	0.289	0.0
Rv1432_day32	0.85	0.0
Rv1565c_day32	2.139	0.0
secA2_input	0.182	-0.412
delta_Rv3594	0.34	0.0
delta_Rv3717	0.145	0.0
delta_Rv3811	0.427	0.205
delta_Rv0954	-0.225	0.0
PonA1	0.516	0.0
EccD1_KO	0.947	0.0
EspI_KO	1.178	0.0
PE35_KO	0.84	0.767
PPE68_KO	0.579	0.442
glycerol2	-1.302	-1.499
lignocerate	-0.961	-1.303
oleate	-1.032	-1.517
phosphatidylcholine	-0.819	-1.499
acetate	-1.248	-1.779
glucAc	-0.722	-1.106
Rv0950ko	0.555	0.416
Rv1096ko	-0.347	0.0
Rv3684ko	-0.354	0.0
delta_otsA_trehalose	-1.531	0.0