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 Rv2581c/-

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

	Rv3741c/-	Rv2581c/-
Fe_supp_jason_reseq	0.341	1.796
low_pH_jason_reseq	-0.241	1.282
NO_jason_reseq	-0.801	0.0
B6_jason_reseq	0.089	0.153
MHCII_jason_reseq	-0.455	0.0
Isoniazid02	0.079	0.0
Rifampicin4	0.092	0.0
Ethambutol3	1.434	0.0
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	-1.511
hypoxia_6wks	0.301	-0.24
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	0.696
BXD01	-0.169	0.0
BXD010	-0.475	0.0
BXD011	0.018	0.0
BXD03	-0.228	0.0
BXD04	0.364	0.236
BXD05	0.483	0.256
BXD06	-0.037	0.0
BXD07	0.4	0.0
BXD08	-0.018	0.133
BXD09	0.324	0.386
CAST	-0.445	0.0
CCcont	0.303	1.43
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	0.537
H37Rv_KO_Rv1272	-1.813	0.0
H37Rv_KO_SugABC	-0.184	0.099
H37Rv_KO_MbtN	0.232	0.0
Trans05	-0.536	0.0
macrophage_unactivated	-0.076	0.436
IL1	0.184	0.0
Rapamycin	0.675	0.0
Tcell	-0.026	0.45
GMCSF	-0.127	0.364
IFNab	0.478	0.417
IFNg	-0.521	0.0
IFNg_GMCSF1	0.05	0.0
Rv1432_day32	0.872	0.0
Rv1565c_day32	-0.362	-0.218
secA2_input	0.302	0.157
delta_Rv3594	-2.14	-1.649
delta_Rv3717	-1.552	-2.25
delta_Rv3811	-0.669	-1.725
delta_Rv0954	-1.243	-2.31
PonA1	-0.21	1.526
EccD1_KO	1.006	2.654
EspI_KO	0.707	0.485
PE35_KO	0.117	0.496
PPE68_KO	0.339	1.677
glycerol2	0.39	-1.401
lignocerate	0.553	-1.218
oleate	0.323	-1.418
phosphatidylcholine	0.147	-1.401
acetate	0.407	-0.856
glucAc	0.021	-0.532
Rv0950ko	1.273	1.462
Rv1096ko	0.492	2.045
Rv3684ko	1.601	1.916
delta_otsA_trehalose	-0.527	0.0