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 Rv2863/vapC23:

update plot	correlation	link to info on gene
Rv3098c/-	(cc=0.4702)	info on Rv3098c/-
Rv1765A/-	(cc=0.4597)	info on Rv1765A/-
Rv0302/-	(cc=0.4487)	info on Rv0302/-
Rv0309/-	(cc=0.445)	info on Rv0309/-
Rv0520/-	(cc=0.4112)	info on Rv0520/-
Rv3770B/-	(cc=0.3912)	info on Rv3770B/-
Rv2276/cyp121	(cc=0.3909)	info on Rv2276/cyp121
Rv3157/nuoM	(cc=0.3904)	info on Rv3157/nuoM
Rv0033/acpA	(cc=0.3901)	info on Rv0033/acpA
Rv2243/fabD	(cc=0.3896)	info on Rv2243/fabD

Correlation of Rv2863/vapC23 with Rv3770B/-

Normalized LFCs for Rv2863/vapC23:
(description and provenance of datasets)

	Rv2863/vapC23	Rv3770B/-
Fe_supp_jason_reseq	0.178	-1.675
low_pH_jason_reseq	-1.389	-1.302
NO_jason_reseq	-0.431	-0.16
B6_jason_reseq	-0.351	-2.219
MHCII_jason_reseq	-0.883	-3.504
Isoniazid02	0.378	0.819
Rifampicin4	-0.826	-0.842
Ethambutol3	-0.528	0.026
Meropenem3	1.095	-0.31
Vancomycin16	-0.302	1.173
Rv2680_day32	-0.091	0.368
H37Rv_KO_MarP	-0.439	-0.346
hypoxia_3wks	0.191	-0.211
hypoxia_6wks	0.121	-0.342
glycerol	0.828	1.542
cholesterol	-0.171	2.008
AJ	-0.679	0.18
Bibs02	0.955	-0.319
Bibs02c	1.064	0.681
BL6	0.54	2.153
BL6a	1.002	2.365
BXD01	0.684	1.88
BXD010	0.307	1.015
BXD011	0.711	1.725
BXD03	0.813	1.77
BXD04	1.224	3.099
BXD05	-0.019	2.054
BXD06	0.995	2.271
BXD07	0.019	2.047
BXD08	1.319	2.3
BXD09	0.793	2.524
CAST	0.215	2.865
CCcont	0.401	1.557
DS01	0.022	-1.619
DS02	0.109	0.128
DS04	2.049	2.781
DS0c	0.275	1.114
GP01	0.85	1.543
GP02	-0.826	-1.205
GP0c	0.44	0.404
NOD	0.0	2.257
NZO	0.036	-1.793
PWK	1.38	1.361
H37Rv_KO_CtpC	-0.141	-0.033
H37Rv_KO_CtpD	0.359	0.121
H37Rv_KO_Rv1272	0.241	0.918
H37Rv_KO_SugABC	-0.659	1.782
H37Rv_KO_MbtN	-0.137	2.066
Trans05	1.856	2.42
macrophage_unactivated	-0.243	0.331
IL1	-0.306	0.211
Rapamycin	-0.123	0.028
Tcell	-0.283	1.219
GMCSF	-0.433	-0.145
IFNab	-0.218	1.533
IFNg	-0.08	0.457
IFNg_GMCSF1	-0.226	1.389
Rv1432_day32	1.158	0.0
Rv1565c_day32	0.957	1.204
secA2_input	-0.787	-0.266
delta_Rv3594	-0.849	1.747
delta_Rv3717	-0.029	0.292
delta_Rv3811	-0.274	0.836
delta_Rv0954	0.339	-0.942
PonA1	-0.182	1.377
EccD1_KO	0.092	0.664
EspI_KO	0.83	0.693
PE35_KO	1.222	0.825
PPE68_KO	0.905	-0.358
glycerol2	0.72	0.464
lignocerate	0.963	-0.884
oleate	0.233	0.224
phosphatidylcholine	0.746	0.231
acetate	0.705	-1.584
glucAc	0.464	-2.417
Rv0950ko	0.684	1.098
Rv1096ko	1.285	1.794
Rv3684ko	0.36	1.677
delta_otsA_trehalose	0.031	-2.395