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 Rv1508A/-:

update plot	correlation	link to info on gene
Rv2998/-	(cc=0.5325)	info on Rv2998/-
Rv1984c/cfp21	(cc=0.5097)	info on Rv1984c/cfp21
Rv1903/-	(cc=0.5065)	info on Rv1903/-
Rv0691c/-	(cc=0.4931)	info on Rv0691c/-
Rv2977c/thiL	(cc=0.4739)	info on Rv2977c/thiL
Rv1215c/-	(cc=0.4668)	info on Rv1215c/-
Rv2819c/-	(cc=0.4578)	info on Rv2819c/-
Rv2492/-	(cc=0.4572)	info on Rv2492/-
Rv1583c/-	(cc=0.4443)	info on Rv1583c/-
Rv2929/-	(cc=0.4418)	info on Rv2929/-

Correlation of Rv1508A/- with Rv2929/-

Normalized LFCs for Rv1508A/-:
(description and provenance of datasets)

	Rv1508A/-	Rv2929/-
Fe_supp_jason_reseq	0.608	-0.775
low_pH_jason_reseq	0.279	0.059
NO_jason_reseq	0.116	1.113
B6_jason_reseq	-0.172	-2.004
MHCII_jason_reseq	-0.921	-2.323
Isoniazid02	-0.662	1.192
Rifampicin4	-0.36	0.054
Ethambutol3	1.415	1.395
Meropenem3	-0.252	0.954
Vancomycin16	-0.48	0.355
Rv2680_day32	-0.352	-2.504
H37Rv_KO_MarP	0.509	-0.373
hypoxia_3wks	-0.921	0.072
hypoxia_6wks	0.489	0.013
glycerol	-0.974	-1.194
cholesterol	-0.19	0.171
AJ	0.36	0.598
Bibs02	-1.407	-1.952
Bibs02c	0.243	0.485
BL6	0.497	0.745
BL6a	-0.07	1.333
BXD01	0.131	1.192
BXD010	0.31	1.561
BXD011	-0.3	1.183
BXD03	0.418	1.942
BXD04	0.011	0.985
BXD05	-0.331	1.564
BXD06	0.046	1.66
BXD07	-0.223	1.048
BXD08	-0.122	0.596
BXD09	0.185	1.566
CAST	0.475	0.754
CCcont	-0.21	0.525
DS01	0.0	0.417
DS02	-0.584	0.225
DS04	-0.178	0.587
DS0c	-0.097	0.839
GP01	0.68	1.223
GP02	0.084	0.686
GP0c	0.182	0.503
NOD	-0.02	1.08
NZO	-0.751	0.783
PWK	-0.217	0.261
H37Rv_KO_CtpC	0.201	1.8
H37Rv_KO_CtpD	1.846	2.176
H37Rv_KO_Rv1272	1.664	1.204
H37Rv_KO_SugABC	-1.846	1.845
H37Rv_KO_MbtN	-0.266	-0.188
Trans05	0.788	1.382
macrophage_unactivated	0.385	0.54
IL1	-0.742	0.638
Rapamycin	0.117	-0.405
Tcell	0.283	0.394
GMCSF	-0.069	-0.731
IFNab	-0.363	-0.417
IFNg	-0.548	0.12
IFNg_GMCSF1	-0.204	0.0
Rv1432_day32	0.811	0.314
Rv1565c_day32	-0.55	-1.14
secA2_input	-0.612	-0.589
delta_Rv3594	-1.848	-1.502
delta_Rv3717	-1.063	-0.599
delta_Rv3811	-0.842	-0.565
delta_Rv0954	-1.008	-0.432
PonA1	-0.374	-0.829
EccD1_KO	0.118	-0.053
EspI_KO	-0.519	0.704
PE35_KO	1.038	0.277
PPE68_KO	1.107	0.0
glycerol2	-0.113	0.06
lignocerate	0.138	0.2
oleate	-0.155	0.149
phosphatidylcholine	0.322	0.37
acetate	0.086	1.199
glucAc	0.166	-0.133
Rv0950ko	-0.163	0.594
Rv1096ko	-1.019	-1.224
Rv3684ko	-0.684	-0.619
delta_otsA_trehalose	-2.369	-0.459