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 Rv1343c/lprD:

update plot	correlation	link to info on gene
Rv2195/qcrA	(cc=0.4743)	info on Rv2195/qcrA
Rv2275/-	(cc=0.4682)	info on Rv2275/-
Rv1023/eno	(cc=0.4601)	info on Rv1023/eno
Rv2492/-	(cc=0.4304)	info on Rv2492/-
Rv2977c/thiL	(cc=0.4293)	info on Rv2977c/thiL
Rv1578c/-	(cc=0.4165)	info on Rv1578c/-
Rv0455c/-	(cc=0.4135)	info on Rv0455c/-
Rv2746c/pgsA3	(cc=0.4047)	info on Rv2746c/pgsA3
Rv1608c/bcpB	(cc=0.3899)	info on Rv1608c/bcpB
Rv2778c/-	(cc=0.387)	info on Rv2778c/-

Correlation of Rv1343c/lprD with Rv1023/eno

Normalized LFCs for Rv1343c/lprD:
(description and provenance of datasets)

	Rv1343c/lprD	Rv1023/eno
Fe_supp_jason_reseq	0.854	0.415
low_pH_jason_reseq	-0.231	0.0
NO_jason_reseq	0.633	0.0
B6_jason_reseq	-0.153	0.0
MHCII_jason_reseq	-0.135	0.0
Isoniazid02	0.093	0.0
Rifampicin4	0.173	0.0
Ethambutol3	-0.258	0.0
Meropenem3	0.22	0.0
Vancomycin16	0.17	0.0
Rv2680_day32	-0.131	0.0
H37Rv_KO_MarP	-0.095	-0.71
hypoxia_3wks	0.0	0.0
hypoxia_6wks	0.0	0.0
glycerol	0.0	0.0
cholesterol	-0.276	0.0
AJ	-0.212	0.0
Bibs02	-0.348	0.0
Bibs02c	-0.399	0.0
BL6	-0.238	0.0
BL6a	-0.181	0.0
BXD01	-0.248	0.0
BXD010	-0.244	0.0
BXD011	-0.116	0.0
BXD03	-0.258	0.0
BXD04	-0.236	0.0
BXD05	-0.256	0.0
BXD06	-0.254	0.0
BXD07	-0.264	0.0
BXD08	-0.253	0.0
BXD09	-0.128	0.0
CAST	-0.439	0.0
CCcont	-0.285	0.149
DS01	0.0	0.0
DS02	-0.199	0.0
DS04	-0.37	0.0
DS0c	-0.413	0.0
GP01	-0.188	0.0
GP02	-0.076	0.0
GP0c	-0.119	0.0
NOD	-0.428	0.0
NZO	1.357	0.0
PWK	-0.179	0.0
H37Rv_KO_CtpC	-0.148	0.0
H37Rv_KO_CtpD	1.298	0.0
H37Rv_KO_Rv1272	-0.269	0.0
H37Rv_KO_SugABC	-0.189	0.0
H37Rv_KO_MbtN	2.159	0.0
Trans05	-0.249	0.0
macrophage_unactivated	0.0	0.0
IL1	0.0	0.0
Rapamycin	0.0	0.0
Tcell	0.0	0.0
GMCSF	0.0	0.0
IFNab	0.0	0.0
IFNg	0.0	0.0
IFNg_GMCSF1	0.0	0.0
Rv1432_day32	0.0	0.0
Rv1565c_day32	-0.415	0.0
secA2_input	-0.528	-0.759
delta_Rv3594	-1.981	0.0
delta_Rv3717	0.065	0.0
delta_Rv3811	-0.754	0.0
delta_Rv0954	-0.559	0.0
PonA1	-1.495	0.0
EccD1_KO	1.145	1.595
EspI_KO	0.687	1.934
PE35_KO	0.368	1.105
PPE68_KO	0.771	0.841
glycerol2	0.0	0.0
lignocerate	0.0	0.0
oleate	0.0	0.0
phosphatidylcholine	0.0	0.0
acetate	0.0	0.0
glucAc	0.0	0.0
Rv0950ko	-0.262	0.0
Rv1096ko	-0.844	-0.793
Rv3684ko	-2.057	-0.861
delta_otsA_trehalose	0.0	0.0