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 Rv1944c/-:

update plot	correlation	link to info on gene
Rv3410c/guaB3	(cc=0.6104)	info on Rv3410c/guaB3
Rv1215c/-	(cc=0.525)	info on Rv1215c/-
Rv1962A/vapB35	(cc=0.504)	info on Rv1962A/vapB35
Rv1697/-	(cc=0.5007)	info on Rv1697/-
Rv1785c/cyp143	(cc=0.4725)	info on Rv1785c/cyp143
Rv1552/frdA	(cc=0.4636)	info on Rv1552/frdA
Rv0988/-	(cc=0.4541)	info on Rv0988/-
Rv0013/trpG	(cc=0.4481)	info on Rv0013/trpG
Rv3665c/dppB	(cc=0.4409)	info on Rv3665c/dppB
Rv2677c/hemY	(cc=0.4353)	info on Rv2677c/hemY

Correlation of Rv1944c/- with Rv3410c/guaB3

Normalized LFCs for Rv1944c/-:
(description and provenance of datasets)

	Rv1944c/-	Rv3410c/guaB3
Fe_supp_jason_reseq	-0.614	0.0
low_pH_jason_reseq	2.561	0.0
NO_jason_reseq	-0.788	0.0
B6_jason_reseq	-0.807	0.0
MHCII_jason_reseq	-1.64	0.0
Isoniazid02	3.462	1.723
Rifampicin4	0.173	0.0
Ethambutol3	3.199	1.294
Meropenem3	0.097	-0.165
Vancomycin16	0.17	-0.366
Rv2680_day32	-0.039	0.0
H37Rv_KO_MarP	0.49	-0.631
hypoxia_3wks	-0.522	0.0
hypoxia_6wks	0.0	0.0
glycerol	-0.614	0.0
cholesterol	0.946	0.972
AJ	-0.97	0.0
Bibs02	0.413	0.0
Bibs02c	-0.67	0.0
BL6	0.477	0.0
BL6a	0.044	0.0
BXD01	0.734	0.0
BXD010	0.605	0.0
BXD011	0.323	0.0
BXD03	0.133	0.0
BXD04	-0.627	0.0
BXD05	1.216	0.0
BXD06	0.314	0.0
BXD07	0.549	0.0
BXD08	0.925	0.0
BXD09	0.196	0.0
CAST	0.367	0.0
CCcont	0.694	0.149
DS01	0.282	0.0
DS02	0.532	0.0
DS04	0.252	0.0
DS0c	1.279	0.0
GP01	0.843	0.0
GP02	2.041	0.0
GP0c	1.277	0.0
NOD	0.944	0.0
NZO	-0.517	0.0
PWK	1.269	0.0
H37Rv_KO_CtpC	1.205	0.0
H37Rv_KO_CtpD	0.344	0.0
H37Rv_KO_Rv1272	1.093	0.0
H37Rv_KO_SugABC	0.768	0.0
H37Rv_KO_MbtN	0.08	0.103
Trans05	-0.126	0.0
macrophage_unactivated	0.9	0.0
IL1	-0.89	0.0
Rapamycin	-0.387	0.0
Tcell	1.388	0.0
GMCSF	-0.42	0.0
IFNab	0.514	0.0
IFNg	-0.249	0.0
IFNg_GMCSF1	0.273	0.0
Rv1432_day32	1.073	0.0
Rv1565c_day32	0.444	0.0
secA2_input	0.402	0.348
delta_Rv3594	-0.26	0.211
delta_Rv3717	0.191	0.0
delta_Rv3811	-0.327	0.0
delta_Rv0954	0.213	0.178
PonA1	0.454	0.0
EccD1_KO	0.342	-0.793
EspI_KO	0.328	-1.081
PE35_KO	0.732	0.601
PPE68_KO	-0.038	0.0
glycerol2	0.548	0.0
lignocerate	0.258	0.0
oleate	0.525	0.0
phosphatidylcholine	0.978	0.0
acetate	-0.279	0.0
glucAc	-0.194	0.0
Rv0950ko	-1.933	-2.31
Rv1096ko	-0.799	-1.894
Rv3684ko	-2.512	-2.057
delta_otsA_trehalose	-1.08	-0.965