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 Rv0057/-:

update plot	correlation	link to info on gene
Rv3711c/dnaQ	(cc=0.51)	info on Rv3711c/dnaQ
Rv3890c/esxC	(cc=0.4927)	info on Rv3890c/esxC
Rv2516c/-	(cc=0.478)	info on Rv2516c/-
Rv1112/-	(cc=0.4723)	info on Rv1112/-
Rv1435c/-	(cc=0.4436)	info on Rv1435c/-
Rv2927c/-	(cc=0.4324)	info on Rv2927c/-
Rv2373c/dnaJ2	(cc=0.4318)	info on Rv2373c/dnaJ2
Rv0364/-	(cc=0.424)	info on Rv0364/-
Rv3011c/gatA	(cc=0.4209)	info on Rv3011c/gatA
Rv0063/-	(cc=0.4173)	info on Rv0063/-

Correlation of Rv0057/- with Rv2373c/dnaJ2

Normalized LFCs for Rv0057/-:
(description and provenance of datasets)

	Rv0057/-	Rv2373c/dnaJ2
Fe_supp_jason_reseq	-0.033	0.0
low_pH_jason_reseq	-1.032	0.0
NO_jason_reseq	-1.297	0.0
B6_jason_reseq	-0.873	0.0
MHCII_jason_reseq	-0.572	0.0
Isoniazid02	-0.263	0.0
Rifampicin4	-1.819	0.0
Ethambutol3	-0.764	0.0
Meropenem3	-0.335	0.0
Vancomycin16	-0.565	0.0
Rv2680_day32	0.371	0.0
H37Rv_KO_MarP	0.301	0.0
hypoxia_3wks	-1.559	0.0
hypoxia_6wks	-0.685	0.0
glycerol	0.341	0.0
cholesterol	0.789	0.0
AJ	0.792	0.0
Bibs02	0.281	0.0
Bibs02c	1.699	0.0
BL6	-0.198	0.0
BL6a	1.507	0.0
BXD01	-0.416	0.0
BXD010	-0.258	0.0
BXD011	-0.376	0.0
BXD03	0.514	0.0
BXD04	0.19	0.0
BXD05	-0.646	0.0
BXD06	0.42	0.0
BXD07	-0.19	0.0
BXD08	0.024	0.0
BXD09	0.237	0.0
CAST	0.529	0.0
CCcont	0.548	0.525
DS01	1.235	0.0
DS02	0.466	0.0
DS04	0.17	0.0
DS0c	0.262	0.0
GP01	0.255	0.0
GP02	-0.789	0.0
GP0c	-0.966	0.0
NOD	1.709	0.0
NZO	0.627	0.0
PWK	1.722	0.0
H37Rv_KO_CtpC	0.059	0.0
H37Rv_KO_CtpD	-0.121	0.0
H37Rv_KO_Rv1272	0.799	0.0
H37Rv_KO_SugABC	0.12	0.0
H37Rv_KO_MbtN	-0.058	0.0
Trans05	-0.049	0.0
macrophage_unactivated	0.404	0.0
IL1	-0.78	0.0
Rapamycin	-0.807	0.0
Tcell	0.0	0.0
GMCSF	0.338	0.0
IFNab	-0.248	0.0
IFNg	0.775	0.0
IFNg_GMCSF1	-0.17	0.0
Rv1432_day32	-0.485	0.0
Rv1565c_day32	-1.112	0.0
secA2_input	-0.485	-0.136
delta_Rv3594	0.424	0.0
delta_Rv3717	0.871	0.0
delta_Rv3811	0.668	0.0
delta_Rv0954	0.826	0.0
PonA1	0.152	0.0
EccD1_KO	-1.503	-1.924
EspI_KO	-0.841	-1.668
PE35_KO	-1.552	-1.304
PPE68_KO	-1.542	-1.43
glycerol2	0.105	-0.95
lignocerate	0.15	-0.826
oleate	-1.021	-0.961
phosphatidylcholine	-0.398	-0.95
acetate	0.884	0.652
glucAc	0.923	1.328
Rv0950ko	0.498	0.0
Rv1096ko	0.781	0.0
Rv3684ko	0.0	0.0
delta_otsA_trehalose	-0.16	-0.103