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 Rv0318c/-:

update plot	correlation	link to info on gene
Rv2660c/-	(cc=0.542)	info on Rv2660c/-
Rv3888c/-	(cc=0.4867)	info on Rv3888c/-
Rv1499/-	(cc=0.4608)	info on Rv1499/-
Rv0789c/-	(cc=0.4465)	info on Rv0789c/-
Rv1162/narH	(cc=0.4427)	info on Rv1162/narH
Rv2813/-	(cc=0.4407)	info on Rv2813/-
Rv3224B/-	(cc=0.4328)	info on Rv3224B/-
Rv0463/-	(cc=0.4317)	info on Rv0463/-
Rv1038c/esxJ	(cc=0.4284)	info on Rv1038c/esxJ
Rv1412/ribC	(cc=0.409)	info on Rv1412/ribC

Correlation of Rv0318c/- with Rv2660c/-

Normalized LFCs for Rv0318c/-:
(description and provenance of datasets)

	Rv0318c/-	Rv2660c/-
Fe_supp_jason_reseq	0.058	0.349
low_pH_jason_reseq	1.265	0.815
NO_jason_reseq	0.144	0.725
B6_jason_reseq	-0.141	0.689
MHCII_jason_reseq	0.08	1.056
Isoniazid02	0.116	0.631
Rifampicin4	-0.097	0.157
Ethambutol3	-0.294	-0.36
Meropenem3	1.397	0.707
Vancomycin16	0.271	1.295
Rv2680_day32	1.305	0.054
H37Rv_KO_MarP	0.787	0.539
hypoxia_3wks	-0.116	-0.845
hypoxia_6wks	-0.783	-1.848
glycerol	-0.721	-0.434
cholesterol	-0.642	0.064
AJ	0.247	0.123
Bibs02	0.269	0.842
Bibs02c	0.864	0.664
BL6	0.494	-1.031
BL6a	-0.293	-0.298
BXD01	0.745	-0.552
BXD010	0.353	-0.199
BXD011	0.485	-0.347
BXD03	0.472	-0.384
BXD04	-0.613	-0.575
BXD05	-0.419	-0.154
BXD06	0.249	0.018
BXD07	0.138	0.205
BXD08	-0.28	-1.164
BXD09	0.381	0.446
CAST	0.299	0.823
CCcont	0.656	-0.041
DS01	0.414	0.125
DS02	0.083	0.777
DS04	-0.363	0.256
DS0c	-0.24	-0.905
GP01	-0.762	-1.688
GP02	-0.281	-1.641
GP0c	-0.644	-1.222
NOD	0.304	-0.303
NZO	1.188	0.793
PWK	0.449	-0.466
H37Rv_KO_CtpC	0.192	-0.007
H37Rv_KO_CtpD	0.186	-3.62
H37Rv_KO_Rv1272	-0.504	-1.054
H37Rv_KO_SugABC	1.097	-0.348
H37Rv_KO_MbtN	-0.74	-1.142
Trans05	0.286	0.228
macrophage_unactivated	1.345	3.156
IL1	0.258	1.783
Rapamycin	0.789	0.832
Tcell	1.362	0.052
GMCSF	0.628	0.85
IFNab	1.055	0.118
IFNg	0.861	-0.192
IFNg_GMCSF1	0.927	1.031
Rv1432_day32	1.232	0.343
Rv1565c_day32	-0.145	-0.855
secA2_input	-0.147	0.96
delta_Rv3594	-0.589	-1.447
delta_Rv3717	-0.692	0.184
delta_Rv3811	-0.744	0.992
delta_Rv0954	-0.327	0.177
PonA1	0.501	1.222
EccD1_KO	-0.25	0.398
EspI_KO	-0.24	-0.299
PE35_KO	-0.047	0.108
PPE68_KO	0.0	-0.56
glycerol2	1.264	1.289
lignocerate	1.684	2.166
oleate	0.88	-0.233
phosphatidylcholine	1.401	1.608
acetate	1.295	2.13
glucAc	1.056	1.334
Rv0950ko	-0.627	-0.326
Rv1096ko	-0.54	-1.264
Rv3684ko	-0.196	-0.835
delta_otsA_trehalose	-0.035	0.128