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 Rv1512/epiA

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

	Rv3671c/-	Rv1512/epiA
Fe_supp_jason_reseq	0.415	1.07
low_pH_jason_reseq	0.0	0.231
NO_jason_reseq	0.0	0.0
B6_jason_reseq	0.0	0.0
MHCII_jason_reseq	0.0	0.135
Isoniazid02	-0.201	0.263
Rifampicin4	-0.374	-1.584
Ethambutol3	-0.168	-0.711
Meropenem3	-0.165	-0.535
Vancomycin16	-0.366	-1.552
Rv2680_day32	0.0	0.0
H37Rv_KO_MarP	-4.019	-3.295
hypoxia_3wks	0.0	-0.459
hypoxia_6wks	0.0	-0.24
glycerol	0.0	0.0
cholesterol	0.0	0.0
AJ	0.0	0.0
Bibs02	0.0	0.0
Bibs02c	0.0	0.0
BL6	0.0	0.0
BL6a	0.0	0.0
BXD01	0.0	0.0
BXD010	0.0	0.0
BXD011	0.0	0.127
BXD03	0.0	0.0
BXD04	0.0	0.0
BXD05	0.0	0.135
BXD06	0.0	0.0
BXD07	0.0	0.0
BXD08	0.0	0.0
BXD09	0.0	0.0
CAST	0.0	0.0
CCcont	0.633	2.202
DS01	0.0	0.0
DS02	0.0	0.0
DS04	0.194	0.194
DS0c	0.0	0.0
GP01	0.0	0.0
GP02	0.0	0.0
GP0c	0.0	0.13
NOD	0.0	0.0
NZO	0.0	0.0
PWK	0.0	0.0
H37Rv_KO_CtpC	0.0	0.309
H37Rv_KO_CtpD	0.241	0.241
H37Rv_KO_Rv1272	0.0	0.0
H37Rv_KO_SugABC	0.099	0.099
H37Rv_KO_MbtN	0.283	0.987
Trans05	0.0	0.0
macrophage_unactivated	0.0	-1.196
IL1	0.0	-0.715
Rapamycin	0.0	-0.74
Tcell	0.0	-1.235
GMCSF	0.0	-1.001
IFNab	0.0	3.501
IFNg	0.0	-1.013
IFNg_GMCSF1	0.0	-1.191
Rv1432_day32	0.0	0.0
Rv1565c_day32	0.0	0.0
secA2_input	-1.199	0.729
delta_Rv3594	1.672	3.847
delta_Rv3717	0.429	3.317
delta_Rv3811	1.414	3.895
delta_Rv0954	0.627	1.482
PonA1	-0.516	-0.56
EccD1_KO	-1.417	-0.908
EspI_KO	-0.724	-1.899
PE35_KO	-0.137	-0.484
PPE68_KO	-0.813	-1.133
glycerol2	0.0	0.0
lignocerate	0.0	0.0
oleate	0.0	0.0
phosphatidylcholine	0.0	0.0
acetate	0.0	0.0
glucAc	0.0	0.392
Rv0950ko	-2.044	-0.697
Rv1096ko	1.08	-0.513
Rv3684ko	2.473	0.419
delta_otsA_trehalose	1.005	0.564