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 Rv0413/mutT3

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

	Rv3191c/-	Rv0413/mutT3
Fe_supp_jason_reseq	-0.024	-0.687
low_pH_jason_reseq	-0.37	0.184
NO_jason_reseq	-0.06	1.16
B6_jason_reseq	0.47	2.963
MHCII_jason_reseq	0.448	-0.088
Isoniazid02	-1.929	-4.688
Rifampicin4	0.625	-1.841
Ethambutol3	-2.151	-2.768
Meropenem3	-0.361	-2.323
Vancomycin16	-0.907	-1.563
Rv2680_day32	0.071	-0.505
H37Rv_KO_MarP	0.409	-0.124
hypoxia_3wks	-0.395	-0.136
hypoxia_6wks	-0.683	0.374
glycerol	-0.176	0.282
cholesterol	-0.111	0.467
AJ	0.424	0.546
Bibs02	0.283	0.536
Bibs02c	0.57	-0.133
BL6	-0.065	1.424
BL6a	0.716	0.425
BXD01	-0.167	1.626
BXD010	0.178	0.521
BXD011	0.436	0.519
BXD03	0.247	0.464
BXD04	0.221	1.339
BXD05	0.692	0.23
BXD06	0.452	0.549
BXD07	0.158	1.134
BXD08	0.253	2.132
BXD09	0.623	0.909
CAST	0.439	3.293
CCcont	0.151	0.272
DS01	0.862	-0.277
DS02	0.285	-0.072
DS04	1.062	0.777
DS0c	0.292	-0.064
GP01	0.304	1.109
GP02	-0.484	-0.691
GP0c	-0.684	-0.017
NOD	0.539	0.835
NZO	0.585	0.803
PWK	0.624	1.805
H37Rv_KO_CtpC	0.291	1.129
H37Rv_KO_CtpD	0.08	-0.667
H37Rv_KO_Rv1272	0.547	-0.605
H37Rv_KO_SugABC	0.526	0.194
H37Rv_KO_MbtN	0.429	-0.309
Trans05	0.094	0.133
macrophage_unactivated	-0.174	-1.162
IL1	-0.047	-0.009
Rapamycin	-0.169	0.457
Tcell	-0.606	-0.358
GMCSF	0.013	-0.29
IFNab	0.287	-0.529
IFNg	0.102	0.615
IFNg_GMCSF1	0.33	0.757
Rv1432_day32	0.316	3.568
Rv1565c_day32	-0.591	0.025
secA2_input	-0.632	0.429
delta_Rv3594	-0.08	-0.274
delta_Rv3717	-0.216	0.165
delta_Rv3811	0.025	-0.51
delta_Rv0954	-0.26	-0.452
PonA1	0.123	0.232
EccD1_KO	-0.217	1.033
EspI_KO	0.371	-0.063
PE35_KO	0.082	-0.694
PPE68_KO	-0.189	-0.541
glycerol2	-0.113	0.324
lignocerate	0.516	0.362
oleate	-0.413	-0.346
phosphatidylcholine	0.084	0.931
acetate	0.57	-0.279
glucAc	0.485	-0.143
Rv0950ko	0.109	1.33
Rv1096ko	0.38	1.607
Rv3684ko	0.301	2.492
delta_otsA_trehalose	-0.138	0.252