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 Rv3741c/-:

update plot	correlation	link to info on gene
Rv1711/-	(cc=0.5046)	info on Rv1711/-
Rv3905c/esxF	(cc=0.4942)	info on Rv3905c/esxF
Rv0757/phoP	(cc=0.4652)	info on Rv0757/phoP
Rv2310/-	(cc=0.4575)	info on Rv2310/-
Rv3748/-	(cc=0.4514)	info on Rv3748/-
Rv2581c/-	(cc=0.4504)	info on Rv2581c/-
Rv0262c/aac	(cc=0.4295)	info on Rv0262c/aac
Rv3175/-	(cc=0.4288)	info on Rv3175/-
Rv2548A/-	(cc=0.4252)	info on Rv2548A/-
Rv0943c/-	(cc=0.4173)	info on Rv0943c/-

Correlation of Rv3741c/- with Rv1711/-

Normalized LFCs for Rv3741c/-:
(description and provenance of datasets)

	Rv3741c/-	Rv1711/-
Fe_supp_jason_reseq	0.341	0.218
low_pH_jason_reseq	-0.241	0.0
NO_jason_reseq	-0.801	0.0
B6_jason_reseq	0.089	0.0
MHCII_jason_reseq	-0.455	0.0
Isoniazid02	0.079	0.0
Rifampicin4	0.092	0.374
Ethambutol3	1.434	0.461
Meropenem3	-0.05	0.0
Vancomycin16	0.196	0.0
Rv2680_day32	0.399	0.0
H37Rv_KO_MarP	0.114	0.195
hypoxia_3wks	-0.439	0.0
hypoxia_6wks	0.301	0.0
glycerol	-0.407	0.0
cholesterol	0.039	0.0
AJ	-0.113	0.0
Bibs02	-0.592	0.0
Bibs02c	-0.696	0.0
BL6	0.025	0.0
BL6a	-0.027	0.0
BXD01	-0.169	0.0
BXD010	-0.475	0.0
BXD011	0.018	0.0
BXD03	-0.228	0.0
BXD04	0.364	0.0
BXD05	0.483	0.0
BXD06	-0.037	0.0
BXD07	0.4	0.0
BXD08	-0.018	0.0
BXD09	0.324	0.0
CAST	-0.445	0.0
CCcont	0.303	0.0
DS01	0.505	0.0
DS02	0.03	0.0
DS04	-0.164	0.0
DS0c	-0.509	0.0
GP01	-0.973	0.0
GP02	-0.626	0.0
GP0c	-0.942	0.0
NOD	-0.967	0.0
NZO	-1.263	0.0
PWK	-1.475	0.0
H37Rv_KO_CtpC	0.011	0.0
H37Rv_KO_CtpD	-0.107	0.0
H37Rv_KO_Rv1272	-1.813	0.0
H37Rv_KO_SugABC	-0.184	0.0
H37Rv_KO_MbtN	0.232	0.103
Trans05	-0.536	0.0
macrophage_unactivated	-0.076	0.0
IL1	0.184	0.0
Rapamycin	0.675	0.0
Tcell	-0.026	0.0
GMCSF	-0.127	0.0
IFNab	0.478	0.0
IFNg	-0.521	0.0
IFNg_GMCSF1	0.05	0.0
Rv1432_day32	0.872	0.0
Rv1565c_day32	-0.362	0.0
secA2_input	0.302	-0.593
delta_Rv3594	-2.14	-0.635
delta_Rv3717	-1.552	-1.114
delta_Rv3811	-0.669	-0.501
delta_Rv0954	-1.243	-1.632
PonA1	-0.21	-0.898
EccD1_KO	1.006	0.414
EspI_KO	0.707	1.791
PE35_KO	0.117	0.0
PPE68_KO	0.339	0.0
glycerol2	0.39	0.0
lignocerate	0.553	0.0
oleate	0.323	0.0
phosphatidylcholine	0.147	0.0
acetate	0.407	0.0
glucAc	0.021	0.0
Rv0950ko	1.273	0.416
Rv1096ko	0.492	0.793
Rv3684ko	1.601	0.452
delta_otsA_trehalose	-0.527	-0.122