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 Rv3671c/-:

update plot	correlation	link to info on gene
Rv2553c/-	(cc=0.7418)	info on Rv2553c/-
Rv1406/fmt	(cc=0.7245)	info on Rv1406/fmt
Rv3101c/ftsX	(cc=0.6982)	info on Rv3101c/ftsX
Rv1836c/-	(cc=0.6799)	info on Rv1836c/-
Rv3789/-	(cc=0.6647)	info on Rv3789/-
Rv3258c/-	(cc=0.6645)	info on Rv3258c/-
Rv0541c/-	(cc=0.6526)	info on Rv0541c/-
Rv1512/epiA	(cc=0.5941)	info on Rv1512/epiA
Rv2507/-	(cc=0.5853)	info on Rv2507/-
Rv1159/pimE	(cc=0.5699)	info on Rv1159/pimE

Correlation of Rv3671c/- with Rv1159/pimE

Normalized LFCs for Rv3671c/-:
(description and provenance of datasets)

	Rv3671c/-	Rv1159/pimE
Fe_supp_jason_reseq	0.415	3.157
low_pH_jason_reseq	0.0	-1.517
NO_jason_reseq	0.0	-1.352
B6_jason_reseq	0.0	-0.909
MHCII_jason_reseq	0.0	-0.8
Isoniazid02	-0.201	-1.81
Rifampicin4	-0.374	-2.794
Ethambutol3	-0.168	-1.423
Meropenem3	-0.165	-0.247
Vancomycin16	-0.366	-3.507
Rv2680_day32	0.0	-2.003
H37Rv_KO_MarP	-4.019	-5.778
hypoxia_3wks	0.0	0.0
hypoxia_6wks	0.0	-0.223
glycerol	0.0	1.255
cholesterol	0.0	0.482
AJ	0.0	0.0
Bibs02	0.0	1.264
Bibs02c	0.0	-0.629
BL6	0.0	0.0
BL6a	0.0	0.125
BXD01	0.0	-0.283
BXD010	0.0	-0.179
BXD011	0.0	0.594
BXD03	0.0	-0.189
BXD04	0.0	-0.372
BXD05	0.0	0.682
BXD06	0.0	0.084
BXD07	0.0	0.861
BXD08	0.0	-0.4
BXD09	0.0	-0.196
CAST	0.0	-0.692
CCcont	0.633	2.281
DS01	0.0	0.671
DS02	0.0	-0.304
DS04	0.194	-0.422
DS0c	0.0	0.267
GP01	0.0	-0.215
GP02	0.0	1.848
GP0c	0.0	0.808
NOD	0.0	-0.314
NZO	0.0	0.663
PWK	0.0	-0.274
H37Rv_KO_CtpC	0.0	1.01
H37Rv_KO_CtpD	0.241	0.537
H37Rv_KO_Rv1272	0.0	-0.306
H37Rv_KO_SugABC	0.099	-0.298
H37Rv_KO_MbtN	0.283	0.903
Trans05	0.0	1.144
macrophage_unactivated	0.0	0.42
IL1	0.0	0.756
Rapamycin	0.0	0.902
Tcell	0.0	1.955
GMCSF	0.0	-0.525
IFNab	0.0	-0.29
IFNg	0.0	0.682
IFNg_GMCSF1	0.0	-0.302
Rv1432_day32	0.0	-2.654
Rv1565c_day32	0.0	-0.381
secA2_input	-1.199	-1.741
delta_Rv3594	1.672	0.34
delta_Rv3717	0.429	-1.067
delta_Rv3811	1.414	-0.54
delta_Rv0954	0.627	-0.469
PonA1	-0.516	0.256
EccD1_KO	-1.417	-0.059
EspI_KO	-0.724	-0.257
PE35_KO	-0.137	-2.412
PPE68_KO	-0.813	0.083
glycerol2	0.0	-1.316
lignocerate	0.0	-1.296
oleate	0.0	-1.704
phosphatidylcholine	0.0	-1.49
acetate	0.0	0.866
glucAc	0.0	-0.285
Rv0950ko	-2.044	-3.474
Rv1096ko	1.08	0.763
Rv3684ko	2.473	1.673
delta_otsA_trehalose	1.005	0.829