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 Rv2573/-:

update plot	correlation	link to info on gene
Rv2484c/-	(cc=0.5177)	info on Rv2484c/-
Rv0889c/citA	(cc=0.5121)	info on Rv0889c/citA
Rv2983/-	(cc=0.493)	info on Rv2983/-
Rv1935c/echA13	(cc=0.4699)	info on Rv1935c/echA13
Rv2701c/suhB	(cc=0.4597)	info on Rv2701c/suhB
Rv1688/mpg	(cc=0.4578)	info on Rv1688/mpg
Rv3297/nei	(cc=0.4532)	info on Rv3297/nei
Rv3242c/-	(cc=0.4499)	info on Rv3242c/-
Rv1226c/-	(cc=0.4484)	info on Rv1226c/-
Rv2340c/PE_PGRS39	(cc=0.4453)	info on Rv2340c/PE_PGRS39

Correlation of Rv2573/- with Rv2983/-

Normalized LFCs for Rv2573/-:
(description and provenance of datasets)

	Rv2573/-	Rv2983/-
Fe_supp_jason_reseq	0.437	0.218
low_pH_jason_reseq	-0.587	0.0
NO_jason_reseq	0.541	0.0
B6_jason_reseq	0.424	0.292
MHCII_jason_reseq	-0.38	0.135
Isoniazid02	1.416	2.89
Rifampicin4	2.464	2.142
Ethambutol3	2.094	1.249
Meropenem3	1.222	0.189
Vancomycin16	1.817	2.183
Rv2680_day32	-1.103	0.0
H37Rv_KO_MarP	0.477	1.112
hypoxia_3wks	0.0	-0.502
hypoxia_6wks	-0.384	-0.549
glycerol	-0.088	0.856
cholesterol	0.153	1.504
AJ	0.808	0.232
Bibs02	0.642	0.0
Bibs02c	0.13	0.209
BL6	-0.065	0.0
BL6a	-0.389	0.0
BXD01	-0.184	0.0
BXD010	-1.465	0.0
BXD011	-1.873	0.0
BXD03	0.744	0.0
BXD04	-0.157	0.0
BXD05	0.817	0.135
BXD06	-1.209	0.133
BXD07	0.62	0.0
BXD08	-0.325	0.0
BXD09	-0.503	0.0
CAST	0.966	0.0
CCcont	0.191	1.082
DS01	-0.145	1.947
DS02	0.099	0.0
DS04	0.181	0.194
DS0c	-0.46	0.596
GP01	0.212	0.0
GP02	2.271	0.0
GP0c	-0.332	0.0
NOD	0.314	0.0
NZO	0.179	0.0
PWK	0.252	0.0
H37Rv_KO_CtpC	-3.353	0.0
H37Rv_KO_CtpD	0.214	0.127
H37Rv_KO_Rv1272	-0.857	0.0
H37Rv_KO_SugABC	0.077	0.099
H37Rv_KO_MbtN	-0.833	0.0
Trans05	-0.794	0.0
macrophage_unactivated	-0.24	0.0
IL1	-0.261	0.0
Rapamycin	-0.97	0.0
Tcell	-0.632	0.0
GMCSF	-1.228	0.0
IFNab	0.018	0.0
IFNg	-1.0	0.0
IFNg_GMCSF1	0.327	0.0
Rv1432_day32	0.111	0.0
Rv1565c_day32	-0.577	0.0
secA2_input	0.127	-0.485
delta_Rv3594	-0.379	1.811
delta_Rv3717	-0.312	0.0
delta_Rv3811	-0.471	0.934
delta_Rv0954	0.172	0.811
PonA1	-0.169	1.367
EccD1_KO	-0.092	-0.664
EspI_KO	-0.217	-1.243
PE35_KO	1.604	1.52
PPE68_KO	0.586	1.667
glycerol2	-1.669	-1.297
lignocerate	-0.912	-2.345
oleate	-1.382	-2.358
phosphatidylcholine	-1.458	-2.697
acetate	-1.087	-1.102
glucAc	-0.731	-1.49
Rv0950ko	-0.148	-1.294
Rv1096ko	0.03	-0.256
Rv3684ko	0.809	-0.727
delta_otsA_trehalose	-0.53	-0.111