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 Rv3191c/-:

update plot	correlation	link to info on gene
Rv0399c/lpqK	(cc=0.6372)	info on Rv0399c/lpqK
Rv0940c/-	(cc=0.6145)	info on Rv0940c/-
Rv0160c/PE4	(cc=0.5738)	info on Rv0160c/PE4
Rv0456B/mazE1	(cc=0.5655)	info on Rv0456B/mazE1
Rv0932c/pstS2	(cc=0.5643)	info on Rv0932c/pstS2
Rv0342/iniA	(cc=0.5544)	info on Rv0342/iniA
Rv3233c/-	(cc=0.5308)	info on Rv3233c/-
Rv0115/hddA	(cc=0.5259)	info on Rv0115/hddA
Rv0413/mutT3	(cc=0.5236)	info on Rv0413/mutT3
Rv3365c/-	(cc=0.5124)	info on Rv3365c/-

Correlation of Rv3191c/- with Rv0399c/lpqK

Normalized LFCs for Rv3191c/-:
(description and provenance of datasets)

	Rv3191c/-	Rv0399c/lpqK
Fe_supp_jason_reseq	-0.024	0.215
low_pH_jason_reseq	-0.37	0.087
NO_jason_reseq	-0.06	0.522
B6_jason_reseq	0.47	0.114
MHCII_jason_reseq	0.448	0.21
Isoniazid02	-1.929	-3.51
Rifampicin4	0.625	0.764
Ethambutol3	-2.151	-2.908
Meropenem3	-0.361	-2.207
Vancomycin16	-0.907	-1.08
Rv2680_day32	0.071	-0.648
H37Rv_KO_MarP	0.409	-0.277
hypoxia_3wks	-0.395	0.375
hypoxia_6wks	-0.683	1.054
glycerol	-0.176	0.107
cholesterol	-0.111	0.349
AJ	0.424	0.153
Bibs02	0.283	-0.076
Bibs02c	0.57	1.291
BL6	-0.065	-0.052
BL6a	0.716	0.936
BXD01	-0.167	0.069
BXD010	0.178	0.39
BXD011	0.436	-0.185
BXD03	0.247	0.695
BXD04	0.221	0.244
BXD05	0.692	0.488
BXD06	0.452	0.018
BXD07	0.158	0.091
BXD08	0.253	0.444
BXD09	0.623	0.0
CAST	0.439	0.062
CCcont	0.151	-0.127
DS01	0.862	0.544
DS02	0.285	-0.121
DS04	1.062	0.966
DS0c	0.292	0.523
GP01	0.304	-0.144
GP02	-0.484	-0.527
GP0c	-0.684	0.018
NOD	0.539	1.193
NZO	0.585	-0.027
PWK	0.624	0.129
H37Rv_KO_CtpC	0.291	0.086
H37Rv_KO_CtpD	0.08	1.419
H37Rv_KO_Rv1272	0.547	-0.079
H37Rv_KO_SugABC	0.526	0.683
H37Rv_KO_MbtN	0.429	0.215
Trans05	0.094	0.052
macrophage_unactivated	-0.174	-0.363
IL1	-0.047	-0.78
Rapamycin	-0.169	0.381
Tcell	-0.606	0.176
GMCSF	0.013	0.327
IFNab	0.287	-0.662
IFNg	0.102	-0.051
IFNg_GMCSF1	0.33	0.443
Rv1432_day32	0.316	0.082
Rv1565c_day32	-0.591	0.269
secA2_input	-0.632	0.312
delta_Rv3594	-0.08	0.057
delta_Rv3717	-0.216	0.115
delta_Rv3811	0.025	-0.028
delta_Rv0954	-0.26	-0.96
PonA1	0.123	-0.112
EccD1_KO	-0.217	0.161
EspI_KO	0.371	0.274
PE35_KO	0.082	0.236
PPE68_KO	-0.189	0.259
glycerol2	-0.113	0.238
lignocerate	0.516	0.524
oleate	-0.413	0.631
phosphatidylcholine	0.084	0.496
acetate	0.57	0.535
glucAc	0.485	0.349
Rv0950ko	0.109	0.048
Rv1096ko	0.38	0.745
Rv3684ko	0.301	-0.321
delta_otsA_trehalose	-0.138	0.178