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 Rv1441c/PE_PGRS26:

update plot	correlation	link to info on gene
Rv0084/hycD	(cc=0.4991)	info on Rv0084/hycD
Rv1070c/echA8	(cc=0.4633)	info on Rv1070c/echA8
Rv3284/-	(cc=0.4242)	info on Rv3284/-
Rv2394/ggtB	(cc=0.4192)	info on Rv2394/ggtB
Rv0745/-	(cc=0.4188)	info on Rv0745/-
Rv2424c/-	(cc=0.4173)	info on Rv2424c/-
Rv1718/-	(cc=0.4156)	info on Rv1718/-
Rv0348/-	(cc=0.4072)	info on Rv0348/-
Rv2786c/ribF	(cc=0.4045)	info on Rv2786c/ribF
Rv3407/vapB47	(cc=0.4029)	info on Rv3407/vapB47

Correlation of Rv1441c/PE_PGRS26 with Rv3407/vapB47

Normalized LFCs for Rv1441c/PE_PGRS26:
(description and provenance of datasets)

	Rv1441c/PE_PGRS26	Rv3407/vapB47
Fe_supp_jason_reseq	-0.281	1.306
low_pH_jason_reseq	-0.326	-0.599
NO_jason_reseq	-0.039	0.268
B6_jason_reseq	-0.235	-0.186
MHCII_jason_reseq	-1.827	-0.317
Isoniazid02	1.379	-0.116
Rifampicin4	0.471	0.384
Ethambutol3	1.113	2.458
Meropenem3	0.273	0.599
Vancomycin16	0.743	0.618
Rv2680_day32	-0.2	-0.364
H37Rv_KO_MarP	0.058	0.809
hypoxia_3wks	-0.439	0.387
hypoxia_6wks	-0.478	0.764
glycerol	0.825	2.676
cholesterol	1.273	0.628
AJ	0.534	1.103
Bibs02	0.803	1.205
Bibs02c	0.268	0.421
BL6	-0.37	0.601
BL6a	0.116	1.481
BXD01	0.113	0.726
BXD010	-0.987	0.576
BXD011	-0.352	0.39
BXD03	0.722	0.914
BXD04	0.073	0.613
BXD05	-0.319	0.619
BXD06	-0.267	1.094
BXD07	0.594	0.637
BXD08	-0.393	0.598
BXD09	0.142	0.796
CAST	0.232	0.402
CCcont	-0.142	1.168
DS01	-0.147	0.233
DS02	0.911	0.755
DS04	-0.153	1.436
DS0c	1.138	1.664
GP01	0.099	-0.763
GP02	0.037	2.058
GP0c	-0.333	0.76
NOD	0.288	0.036
NZO	-0.257	0.887
PWK	-0.392	0.381
H37Rv_KO_CtpC	0.432	0.261
H37Rv_KO_CtpD	-0.657	1.042
H37Rv_KO_Rv1272	0.486	0.999
H37Rv_KO_SugABC	-0.443	0.083
H37Rv_KO_MbtN	-0.828	-0.246
Trans05	0.721	0.899
macrophage_unactivated	-0.593	0.196
IL1	0.139	-0.682
Rapamycin	0.509	-0.918
Tcell	-1.049	-0.153
GMCSF	-0.042	-0.845
IFNab	-0.568	-0.178
IFNg	-0.219	-0.58
IFNg_GMCSF1	-0.421	-0.701
Rv1432_day32	-0.012	-0.137
Rv1565c_day32	-0.599	0.37
secA2_input	-1.154	-0.712
delta_Rv3594	-0.818	-0.395
delta_Rv3717	0.048	-1.515
delta_Rv3811	-0.662	-1.126
delta_Rv0954	-0.344	-1.125
PonA1	-0.139	-0.569
EccD1_KO	0.766	-0.145
EspI_KO	1.155	0.436
PE35_KO	1.138	1.353
PPE68_KO	1.526	1.382
glycerol2	0.233	0.89
lignocerate	0.669	1.445
oleate	0.405	0.577
phosphatidylcholine	0.665	0.881
acetate	1.214	1.034
glucAc	0.438	0.389
Rv0950ko	-0.591	0.184
Rv1096ko	-0.507	-0.573
Rv3684ko	-0.508	-0.157
delta_otsA_trehalose	0.787	-1.215