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 Rv2978c/-:

update plot	correlation	link to info on gene
Rv1422/-	(cc=0.5113)	info on Rv1422/-
Rv2270/lppN	(cc=0.5113)	info on Rv2270/lppN
Rv1962A/vapB35	(cc=0.51)	info on Rv1962A/vapB35
Rv3768/-	(cc=0.5032)	info on Rv3768/-
Rv1946c/lppG	(cc=0.4917)	info on Rv1946c/lppG
Rv0581/vapB26	(cc=0.4892)	info on Rv0581/vapB26
Rv1079/metB	(cc=0.4711)	info on Rv1079/metB
Rv2673/aftC	(cc=0.4682)	info on Rv2673/aftC
Rv1225c/-	(cc=0.4676)	info on Rv1225c/-
Rv2980/-	(cc=0.4671)	info on Rv2980/-

Correlation of Rv2978c/- with Rv2980/-

Normalized LFCs for Rv2978c/-:
(description and provenance of datasets)

	Rv2978c/-	Rv2980/-
Fe_supp_jason_reseq	-0.052	0.0
low_pH_jason_reseq	-0.261	0.0
NO_jason_reseq	-0.221	0.0
B6_jason_reseq	-1.303	0.0
MHCII_jason_reseq	-1.184	0.0
Isoniazid02	0.611	0.0
Rifampicin4	0.753	0.0
Ethambutol3	1.126	0.32
Meropenem3	0.223	0.165
Vancomycin16	-0.146	0.0
Rv2680_day32	-0.586	0.0
H37Rv_KO_MarP	0.179	-0.371
hypoxia_3wks	0.211	0.0
hypoxia_6wks	0.762	0.0
glycerol	0.0	0.0
cholesterol	0.526	0.0
AJ	0.605	0.0
Bibs02	-0.49	0.0
Bibs02c	0.377	0.0
BL6	0.505	0.0
BL6a	0.517	0.0
BXD01	0.473	0.0
BXD010	0.334	0.0
BXD011	0.445	0.0
BXD03	1.353	0.0
BXD04	0.341	0.0
BXD05	-0.054	0.0
BXD06	0.263	0.0
BXD07	1.436	0.0
BXD08	0.367	0.0
BXD09	0.491	0.0
CAST	0.377	0.0
CCcont	0.478	0.0
DS01	0.387	0.236
DS02	-0.944	0.0
DS04	-1.154	0.194
DS0c	-0.696	0.0
GP01	0.257	0.0
GP02	0.627	0.0
GP0c	0.169	0.0
NOD	0.0	0.0
NZO	-0.806	0.0
PWK	0.418	0.0
H37Rv_KO_CtpC	0.32	0.0
H37Rv_KO_CtpD	0.786	0.0
H37Rv_KO_Rv1272	-0.086	0.0
H37Rv_KO_SugABC	1.188	0.0
H37Rv_KO_MbtN	-0.809	0.0
Trans05	0.38	0.0
macrophage_unactivated	0.922	0.0
IL1	0.234	0.0
Rapamycin	-0.7	0.0
Tcell	-0.619	0.0
GMCSF	0.0	0.0
IFNab	-0.2	0.0
IFNg	-0.609	0.0
IFNg_GMCSF1	0.342	0.0
Rv1432_day32	0.541	0.0
Rv1565c_day32	-3.101	0.0
secA2_input	0.095	2.043
delta_Rv3594	1.892	0.0
delta_Rv3717	0.165	0.0
delta_Rv3811	0.617	-0.205
delta_Rv0954	1.336	0.0
PonA1	1.051	0.402
EccD1_KO	2.601	2.23
EspI_KO	2.524	1.081
PE35_KO	2.018	1.978
PPE68_KO	2.323	2.963
glycerol2	-0.112	0.0
lignocerate	-0.51	0.0
oleate	0.159	0.0
phosphatidylcholine	0.0	0.0
acetate	-1.358	0.0
glucAc	-1.16	0.0
Rv0950ko	0.0	1.049
Rv1096ko	0.76	1.05
Rv3684ko	0.219	0.413
delta_otsA_trehalose	-0.659	0.0