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 Rv1703c/-:

update plot	correlation	link to info on gene
Rv3322c/-	(cc=0.4862)	info on Rv3322c/-
Rv3749c/-	(cc=0.4839)	info on Rv3749c/-
Rv1356c/-	(cc=0.4417)	info on Rv1356c/-
Rv3407/vapB47	(cc=0.4409)	info on Rv3407/vapB47
Rv2253/-	(cc=0.4393)	info on Rv2253/-
Rv3697c/vapC48	(cc=0.4335)	info on Rv3697c/vapC48
Rv2287/yjcE	(cc=0.4193)	info on Rv2287/yjcE
Rv0182c/sigG	(cc=0.4169)	info on Rv0182c/sigG
Rv1531/-	(cc=0.4109)	info on Rv1531/-
Rv2424c/-	(cc=0.4089)	info on Rv2424c/-

Correlation of Rv1703c/- with Rv3322c/-

Normalized LFCs for Rv1703c/-:
(description and provenance of datasets)

	Rv1703c/-	Rv3322c/-
Fe_supp_jason_reseq	0.107	-0.672
low_pH_jason_reseq	-0.709	-1.981
NO_jason_reseq	0.381	-0.459
B6_jason_reseq	0.215	-0.711
MHCII_jason_reseq	0.726	0.159
Isoniazid02	0.179	0.298
Rifampicin4	0.046	-0.376
Ethambutol3	0.143	-0.229
Meropenem3	0.689	0.261
Vancomycin16	0.093	0.337
Rv2680_day32	-0.843	-2.622
H37Rv_KO_MarP	-0.161	0.673
hypoxia_3wks	-0.048	0.295
hypoxia_6wks	-0.357	-0.395
glycerol	-0.556	0.445
cholesterol	0.183	0.496
AJ	0.496	0.145
Bibs02	0.51	-0.121
Bibs02c	-0.064	1.126
BL6	0.876	0.151
BL6a	0.092	0.042
BXD01	0.342	-0.014
BXD010	0.054	-0.289
BXD011	-0.051	-0.546
BXD03	0.085	0.111
BXD04	0.0	-0.571
BXD05	0.154	-0.376
BXD06	0.017	-0.318
BXD07	-0.151	0.232
BXD08	0.163	-0.409
BXD09	0.024	-1.079
CAST	0.41	-1.026
CCcont	0.503	0.329
DS01	0.262	0.193
DS02	0.232	0.607
DS04	-0.059	0.342
DS0c	0.778	-0.668
GP01	0.301	-0.78
GP02	0.234	1.469
GP0c	0.645	0.374
NOD	0.317	-0.174
NZO	0.811	1.124
PWK	-0.196	-0.661
H37Rv_KO_CtpC	-0.162	-1.284
H37Rv_KO_CtpD	0.923	-0.464
H37Rv_KO_Rv1272	0.317	-0.455
H37Rv_KO_SugABC	0.276	0.883
H37Rv_KO_MbtN	-0.85	-1.609
Trans05	0.841	0.744
macrophage_unactivated	0.129	0.451
IL1	-0.448	-2.658
Rapamycin	-0.911	-2.51
Tcell	0.769	0.274
GMCSF	-0.745	-1.114
IFNab	-0.357	-1.022
IFNg	-0.112	-2.29
IFNg_GMCSF1	-1.024	-0.575
Rv1432_day32	1.047	-0.296
Rv1565c_day32	0.731	0.264
secA2_input	-0.249	0.553
delta_Rv3594	-0.295	-0.018
delta_Rv3717	-0.701	-0.191
delta_Rv3811	-0.498	-0.391
delta_Rv0954	-0.536	-0.416
PonA1	0.119	-1.392
EccD1_KO	-0.069	0.5
EspI_KO	0.733	0.73
PE35_KO	0.718	-0.079
PPE68_KO	0.787	-0.31
glycerol2	0.476	0.726
lignocerate	0.554	0.678
oleate	0.352	0.591
phosphatidylcholine	0.665	0.735
acetate	-0.236	0.18
glucAc	-0.196	0.223
Rv0950ko	0.395	0.118
Rv1096ko	-0.283	-0.29
Rv3684ko	0.445	0.416
delta_otsA_trehalose	-0.066	0.667