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 Rv2073c/-:

update plot	correlation	link to info on gene
Rv0338c/-	(cc=0.5348)	info on Rv0338c/-
Rv2090/-	(cc=0.5078)	info on Rv2090/-
Rv3775/lipE	(cc=0.4726)	info on Rv3775/lipE
Rv0320/-	(cc=0.4669)	info on Rv0320/-
Rv1838c/vapC13	(cc=0.4591)	info on Rv1838c/vapC13
Rv2095c/pafC	(cc=0.4505)	info on Rv2095c/pafC
Rv0994/moeA1	(cc=0.4498)	info on Rv0994/moeA1
Rv1768/PE_PGRS31	(cc=0.4359)	info on Rv1768/PE_PGRS31
Rv0069c/sdaA	(cc=0.4251)	info on Rv0069c/sdaA
Rv3617/ephA	(cc=0.4244)	info on Rv3617/ephA

Correlation of Rv2073c/- with Rv0338c/-

Normalized LFCs for Rv2073c/-:
(description and provenance of datasets)

	Rv2073c/-	Rv0338c/-
Fe_supp_jason_reseq	-0.893	0.0
low_pH_jason_reseq	-0.358	0.0
NO_jason_reseq	0.924	0.0
B6_jason_reseq	0.104	0.0
MHCII_jason_reseq	-0.216	0.0
Isoniazid02	0.311	0.0
Rifampicin4	-1.18	0.0
Ethambutol3	-0.202	0.0
Meropenem3	-0.798	0.0
Vancomycin16	-1.47	0.0
Rv2680_day32	0.191	0.0
H37Rv_KO_MarP	-1.175	0.0
hypoxia_3wks	0.439	0.0
hypoxia_6wks	0.313	0.0
glycerol	0.85	0.385
cholesterol	4.139	3.545
AJ	0.541	0.0
Bibs02	0.33	0.0
Bibs02c	-0.138	0.0
BL6	-0.017	0.0
BL6a	-0.881	0.0
BXD01	-1.569	0.0
BXD010	-1.581	0.0
BXD011	-0.832	0.0
BXD03	-1.017	0.0
BXD04	-1.23	0.0
BXD05	-0.607	0.0
BXD06	-1.164	0.0
BXD07	-0.859	0.0
BXD08	-1.132	0.0
BXD09	-0.323	0.0
CAST	-0.504	0.0
CCcont	-0.685	0.0
DS01	0.157	0.0
DS02	0.058	0.0
DS04	-0.215	0.0
DS0c	0.803	0.0
GP01	0.849	0.0
GP02	0.423	0.0
GP0c	0.613	0.0
NOD	-0.817	0.0
NZO	1.156	0.0
PWK	-1.105	0.0
H37Rv_KO_CtpC	0.204	0.0
H37Rv_KO_CtpD	1.25	0.0
H37Rv_KO_Rv1272	0.006	0.0
H37Rv_KO_SugABC	1.134	0.0
H37Rv_KO_MbtN	-0.179	0.0
Trans05	0.808	0.0
macrophage_unactivated	-0.499	0.0
IL1	1.471	0.0
Rapamycin	0.512	0.0
Tcell	0.046	0.0
GMCSF	0.792	0.0
IFNab	0.541	0.0
IFNg	0.072	0.0
IFNg_GMCSF1	0.33	0.0
Rv1432_day32	1.021	0.0
Rv1565c_day32	-0.038	0.0
secA2_input	0.473	0.847
delta_Rv3594	-0.422	0.0
delta_Rv3717	0.233	0.0
delta_Rv3811	-0.122	0.0
delta_Rv0954	-0.143	0.0
PonA1	-0.508	0.0
EccD1_KO	1.697	0.0
EspI_KO	0.559	0.0
PE35_KO	0.618	0.0
PPE68_KO	0.653	0.0
glycerol2	-0.064	0.0
lignocerate	0.363	0.0
oleate	-1.46	0.0
phosphatidylcholine	-0.223	0.0
acetate	0.214	0.0
glucAc	0.229	0.0
Rv0950ko	0.681	0.0
Rv1096ko	0.875	0.0
Rv3684ko	0.468	0.0
delta_otsA_trehalose	0.315	0.133