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 Rv3361c/-:

update plot	correlation	link to info on gene
Rv0973c/accA2	(cc=0.5648)	info on Rv0973c/accA2
Rv2993c/-	(cc=0.5383)	info on Rv2993c/-
Rv1831/-	(cc=0.5197)	info on Rv1831/-
Rv0371c/-	(cc=0.518)	info on Rv0371c/-
Rv1176c/-	(cc=0.5138)	info on Rv1176c/-
Rv1854c/ndh	(cc=0.5137)	info on Rv1854c/ndh
Rv3770B/-	(cc=0.511)	info on Rv3770B/-
Rv1505c/-	(cc=0.5046)	info on Rv1505c/-
Rv3126c/-	(cc=0.5015)	info on Rv3126c/-
Rv3863/-	(cc=0.4994)	info on Rv3863/-

Correlation of Rv3361c/- with Rv3770B/-

Normalized LFCs for Rv3361c/-:
(description and provenance of datasets)

	Rv3361c/-	Rv3770B/-
Fe_supp_jason_reseq	-0.043	-1.675
low_pH_jason_reseq	-1.718	-1.302
NO_jason_reseq	0.945	-0.16
B6_jason_reseq	-1.08	-2.219
MHCII_jason_reseq	-2.216	-3.504
Isoniazid02	-0.146	0.819
Rifampicin4	-0.872	-0.842
Ethambutol3	-0.544	0.026
Meropenem3	-0.535	-0.31
Vancomycin16	-0.546	1.173
Rv2680_day32	0.249	0.368
H37Rv_KO_MarP	0.6	-0.346
hypoxia_3wks	-0.072	-0.211
hypoxia_6wks	0.355	-0.342
glycerol	1.837	1.542
cholesterol	-0.381	2.008
AJ	-0.138	0.18
Bibs02	-0.775	-0.319
Bibs02c	1.801	0.681
BL6	2.544	2.153
BL6a	2.527	2.365
BXD01	2.895	1.88
BXD010	2.856	1.015
BXD011	1.935	1.725
BXD03	0.722	1.77
BXD04	1.346	3.099
BXD05	0.935	2.054
BXD06	2.714	2.271
BXD07	1.965	2.047
BXD08	3.001	2.3
BXD09	2.618	2.524
CAST	0.791	2.865
CCcont	2.308	1.557
DS01	1.42	-1.619
DS02	0.35	0.128
DS04	-0.51	2.781
DS0c	0.0	1.114
GP01	-0.418	1.543
GP02	0.694	-1.205
GP0c	0.0	0.404
NOD	3.83	2.257
NZO	-0.678	-1.793
PWK	-1.009	1.361
H37Rv_KO_CtpC	1.224	-0.033
H37Rv_KO_CtpD	-0.651	0.121
H37Rv_KO_Rv1272	2.571	0.918
H37Rv_KO_SugABC	-0.122	1.782
H37Rv_KO_MbtN	2.626	2.066
Trans05	0.742	2.42
macrophage_unactivated	1.411	0.331
IL1	0.715	0.211
Rapamycin	0.988	0.028
Tcell	1.3	1.219
GMCSF	0.562	-0.145
IFNab	0.81	1.533
IFNg	0.93	0.457
IFNg_GMCSF1	0.101	1.389
Rv1432_day32	0.0	0.0
Rv1565c_day32	-1.052	1.204
secA2_input	1.781	-0.266
delta_Rv3594	3.105	1.747
delta_Rv3717	0.927	0.292
delta_Rv3811	2.235	0.836
delta_Rv0954	2.421	-0.942
PonA1	0.931	1.377
EccD1_KO	-0.22	0.664
EspI_KO	0.841	0.693
PE35_KO	1.015	0.825
PPE68_KO	2.4	-0.358
glycerol2	0.0	0.464
lignocerate	0.0	-0.884
oleate	0.746	0.224
phosphatidylcholine	0.499	0.231
acetate	-0.658	-1.584
glucAc	-0.666	-2.417
Rv0950ko	-0.229	1.098
Rv1096ko	-0.597	1.794
Rv3684ko	1.172	1.677
delta_otsA_trehalose	-1.407	-2.395