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 Rv1215c/-

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

	Rv1508A/-	Rv1215c/-
Fe_supp_jason_reseq	0.608	-0.272
low_pH_jason_reseq	0.279	0.11
NO_jason_reseq	0.116	0.339
B6_jason_reseq	-0.172	-0.613
MHCII_jason_reseq	-0.921	-1.388
Isoniazid02	-0.662	0.755
Rifampicin4	-0.36	0.441
Ethambutol3	1.415	2.03
Meropenem3	-0.252	0.919
Vancomycin16	-0.48	0.276
Rv2680_day32	-0.352	0.171
H37Rv_KO_MarP	0.509	0.334
hypoxia_3wks	-0.921	0.622
hypoxia_6wks	0.489	0.0
glycerol	-0.974	-0.127
cholesterol	-0.19	0.069
AJ	0.36	0.536
Bibs02	-1.407	-0.399
Bibs02c	0.243	-0.488
BL6	0.497	0.418
BL6a	-0.07	0.141
BXD01	0.131	0.339
BXD010	0.31	0.527
BXD011	-0.3	1.165
BXD03	0.418	0.172
BXD04	0.011	0.158
BXD05	-0.331	0.27
BXD06	0.046	0.515
BXD07	-0.223	0.25
BXD08	-0.122	0.743
BXD09	0.185	0.53
CAST	0.475	0.509
CCcont	-0.21	0.054
DS01	0.0	0.058
DS02	-0.584	0.323
DS04	-0.178	0.093
DS0c	-0.097	0.079
GP01	0.68	0.529
GP02	0.084	1.583
GP0c	0.182	0.077
NOD	-0.02	-0.172
NZO	-0.751	0.98
PWK	-0.217	0.117
H37Rv_KO_CtpC	0.201	0.721
H37Rv_KO_CtpD	1.846	0.5
H37Rv_KO_Rv1272	1.664	0.837
H37Rv_KO_SugABC	-1.846	-0.024
H37Rv_KO_MbtN	-0.266	0.297
Trans05	0.788	0.601
macrophage_unactivated	0.385	-0.186
IL1	-0.742	-0.264
Rapamycin	0.117	-0.181
Tcell	0.283	0.14
GMCSF	-0.069	-0.037
IFNab	-0.363	0.088
IFNg	-0.548	-0.238
IFNg_GMCSF1	-0.204	-0.632
Rv1432_day32	0.811	1.285
Rv1565c_day32	-0.55	0.092
secA2_input	-0.612	-0.604
delta_Rv3594	-1.848	-0.194
delta_Rv3717	-1.063	-0.932
delta_Rv3811	-0.842	-0.598
delta_Rv0954	-1.008	-0.872
PonA1	-0.374	-0.016
EccD1_KO	0.118	0.457
EspI_KO	-0.519	0.311
PE35_KO	1.038	0.405
PPE68_KO	1.107	0.253
glycerol2	-0.113	-0.031
lignocerate	0.138	-0.054
oleate	-0.155	0.593
phosphatidylcholine	0.322	0.539
acetate	0.086	-0.409
glucAc	0.166	-0.644
Rv0950ko	-0.163	-0.347
Rv1096ko	-1.019	0.042
Rv3684ko	-0.684	-0.331
delta_otsA_trehalose	-2.369	-0.673