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 Rv2660c/-:

update plot	correlation	link to info on gene
Rv0601c/-	(cc=0.6105)	info on Rv0601c/-
Rv0318c/-	(cc=0.542)	info on Rv0318c/-
Rv2532c/-	(cc=0.5241)	info on Rv2532c/-
Rv0319/pcp	(cc=0.5009)	info on Rv0319/pcp
Rv0789c/-	(cc=0.4955)	info on Rv0789c/-
Rv1162/narH	(cc=0.4696)	info on Rv1162/narH
Rv2919c/glnB	(cc=0.4636)	info on Rv2919c/glnB
Rv2802c/-	(cc=0.4483)	info on Rv2802c/-
Rv3534c/hsaF	(cc=0.4433)	info on Rv3534c/hsaF
Rv2813/-	(cc=0.4366)	info on Rv2813/-

Correlation of Rv2660c/- with Rv0601c/-

Normalized LFCs for Rv2660c/-:
(description and provenance of datasets)

	Rv2660c/-	Rv0601c/-
Fe_supp_jason_reseq	0.349	1.601
low_pH_jason_reseq	0.815	0.898
NO_jason_reseq	0.725	2.024
B6_jason_reseq	0.689	2.532
MHCII_jason_reseq	1.056	1.891
Isoniazid02	0.631	1.088
Rifampicin4	0.157	0.777
Ethambutol3	-0.36	-0.185
Meropenem3	0.707	0.068
Vancomycin16	1.295	1.395
Rv2680_day32	0.054	1.998
H37Rv_KO_MarP	0.539	0.718
hypoxia_3wks	-0.845	-0.06
hypoxia_6wks	-1.848	1.222
glycerol	-0.434	0.456
cholesterol	0.064	0.256
AJ	0.123	-0.351
Bibs02	0.842	0.368
Bibs02c	0.664	1.217
BL6	-1.031	-2.428
BL6a	-0.298	0.835
BXD01	-0.552	-1.118
BXD010	-0.199	-0.776
BXD011	-0.347	-0.583
BXD03	-0.384	-0.95
BXD04	-0.575	-0.816
BXD05	-0.154	0.0
BXD06	0.018	-0.081
BXD07	0.205	-0.557
BXD08	-1.164	-1.717
BXD09	0.446	-0.086
CAST	0.823	0.641
CCcont	-0.041	-0.617
DS01	0.125	0.548
DS02	0.777	0.126
DS04	0.256	2.599
DS0c	-0.905	0.314
GP01	-1.688	-1.827
GP02	-1.641	-2.143
GP0c	-1.222	-1.094
NOD	-0.303	2.018
NZO	0.793	-0.737
PWK	-0.466	-0.789
H37Rv_KO_CtpC	-0.007	-1.118
H37Rv_KO_CtpD	-3.62	-2.459
H37Rv_KO_Rv1272	-1.054	-2.492
H37Rv_KO_SugABC	-0.348	-1.877
H37Rv_KO_MbtN	-1.142	-2.414
Trans05	0.228	-0.111
macrophage_unactivated	3.156	2.541
IL1	1.783	1.373
Rapamycin	0.832	1.921
Tcell	0.052	0.31
GMCSF	0.85	0.644
IFNab	0.118	0.774
IFNg	-0.192	0.425
IFNg_GMCSF1	1.031	2.555
Rv1432_day32	0.343	0.0
Rv1565c_day32	-0.855	-1.267
secA2_input	0.96	0.543
delta_Rv3594	-1.447	-0.802
delta_Rv3717	0.184	0.274
delta_Rv3811	0.992	0.726
delta_Rv0954	0.177	0.098
PonA1	1.222	0.792
EccD1_KO	0.398	0.97
EspI_KO	-0.299	0.183
PE35_KO	0.108	-1.843
PPE68_KO	-0.56	-0.534
glycerol2	1.289	-0.581
lignocerate	2.166	0.751
oleate	-0.233	-2.579
phosphatidylcholine	1.608	0.161
acetate	2.13	1.077
glucAc	1.334	0.806
Rv0950ko	-0.326	0.175
Rv1096ko	-1.264	0.657
Rv3684ko	-0.835	-0.298
delta_otsA_trehalose	0.128	0.084