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 Rv1049/-:

update plot	correlation	link to info on gene
Rv0178/-	(cc=0.4306)	info on Rv0178/-
Rv2229c/-	(cc=0.4059)	info on Rv2229c/-
Rv1325c/PE_PGRS24	(cc=0.4039)	info on Rv1325c/PE_PGRS24
Rv3549c/-	(cc=0.4006)	info on Rv3549c/-
Rv0541c/-	(cc=0.3995)	info on Rv0541c/-
Rv3229c/desA3	(cc=0.3963)	info on Rv3229c/desA3
Rv0199/-	(cc=0.3842)	info on Rv0199/-
Rv3072c/-	(cc=0.3748)	info on Rv3072c/-
Rv3913/trxB2	(cc=0.3744)	info on Rv3913/trxB2
Rv2271/-	(cc=0.3716)	info on Rv2271/-

Correlation of Rv1049/- with Rv0541c/-

Normalized LFCs for Rv1049/-:
(description and provenance of datasets)

	Rv1049/-	Rv0541c/-
Fe_supp_jason_reseq	1.435	0.598
low_pH_jason_reseq	1.566	0.0
NO_jason_reseq	2.116	0.0
B6_jason_reseq	-0.889	0.0
MHCII_jason_reseq	-1.04	0.0
Isoniazid02	-0.501	0.0
Rifampicin4	0.661	0.0
Ethambutol3	0.9	0.0
Meropenem3	-0.254	0.0
Vancomycin16	0.329	0.0
Rv2680_day32	-0.386	0.0
H37Rv_KO_MarP	0.078	-1.683
hypoxia_3wks	0.817	0.0
hypoxia_6wks	0.221	0.0
glycerol	-0.772	0.0
cholesterol	-0.292	0.0
AJ	-0.998	0.0
Bibs02	-1.552	0.0
Bibs02c	-1.234	0.0
BL6	-0.563	0.0
BL6a	-1.191	0.0
BXD01	0.482	0.0
BXD010	-0.017	0.0
BXD011	0.291	0.0
BXD03	-0.637	0.0
BXD04	0.855	0.0
BXD05	-0.091	0.0
BXD06	0.076	0.0
BXD07	0.507	0.0
BXD08	1.06	0.0
BXD09	0.399	0.0
CAST	-0.03	0.0
CCcont	-0.265	0.525
DS01	-0.015	0.0
DS02	0.814	0.0
DS04	0.921	0.0
DS0c	-0.352	0.0
GP01	-0.665	0.0
GP02	0.163	0.0
GP0c	-0.497	0.0
NOD	0.841	0.0
NZO	0.09	0.0
PWK	-0.132	0.0
H37Rv_KO_CtpC	-0.575	0.0
H37Rv_KO_CtpD	0.52	0.241
H37Rv_KO_Rv1272	0.721	0.0
H37Rv_KO_SugABC	1.351	0.0
H37Rv_KO_MbtN	-0.128	0.196
Trans05	-0.669	0.0
macrophage_unactivated	2.039	0.0
IL1	-0.039	0.0
Rapamycin	-0.663	0.0
Tcell	0.316	0.0
GMCSF	-1.89	0.0
IFNab	-0.744	0.0
IFNg	0.259	0.0
IFNg_GMCSF1	0.487	0.0
Rv1432_day32	0.08	0.0
Rv1565c_day32	-0.799	0.0
secA2_input	-0.767	-1.882
delta_Rv3594	0.613	3.674
delta_Rv3717	1.971	3.71
delta_Rv3811	1.899	4.232
delta_Rv0954	0.849	2.348
PonA1	0.731	-1.235
EccD1_KO	-0.569	-3.887
EspI_KO	-1.492	-3.066
PE35_KO	-0.893	-2.847
PPE68_KO	-0.352	-2.409
glycerol2	0.46	0.0
lignocerate	0.481	0.0
oleate	1.099	0.0
phosphatidylcholine	0.901	0.0
acetate	-0.203	0.0
glucAc	0.84	0.0
Rv0950ko	0.286	-2.813
Rv1096ko	1.312	0.302
Rv3684ko	0.557	0.327
delta_otsA_trehalose	1.043	0.0