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 Rv1615/-:

update plot	correlation	link to info on gene
Rv3525c/-	(cc=0.4581)	info on Rv3525c/-
Rv2274c/mazF8	(cc=0.4461)	info on Rv2274c/mazF8
Rv1048c/-	(cc=0.4253)	info on Rv1048c/-
Rv2585c/-	(cc=0.4206)	info on Rv2585c/-
Rv0923c/-	(cc=0.4176)	info on Rv0923c/-
Rv2269c/-	(cc=0.396)	info on Rv2269c/-
Rv0826/-	(cc=0.395)	info on Rv0826/-
Rv2061c/-	(cc=0.3931)	info on Rv2061c/-
Rv1528c/papA4	(cc=0.3769)	info on Rv1528c/papA4
Rv2811/-	(cc=0.3754)	info on Rv2811/-

Correlation of Rv1615/- with Rv0923c/-

Normalized LFCs for Rv1615/-:
(description and provenance of datasets)

	Rv1615/-	Rv0923c/-
Fe_supp_jason_reseq	-3.429	-0.59
low_pH_jason_reseq	-1.571	0.37
NO_jason_reseq	-0.732	-0.635
B6_jason_reseq	-0.432	-0.28
MHCII_jason_reseq	-0.675	-0.508
Isoniazid02	-1.809	0.055
Rifampicin4	1.224	0.333
Ethambutol3	-0.737	0.524
Meropenem3	-0.183	0.562
Vancomycin16	-0.146	0.135
Rv2680_day32	-0.463	0.36
H37Rv_KO_MarP	-1.29	0.141
hypoxia_3wks	0.0	0.0
hypoxia_6wks	-0.094	-0.111
glycerol	-0.41	-0.408
cholesterol	-0.745	0.18
AJ	0.123	0.365
Bibs02	1.048	0.332
Bibs02c	-0.452	-0.279
BL6	-0.689	0.295
BL6a	-0.376	0.099
BXD01	0.395	0.743
BXD010	-0.392	0.431
BXD011	-0.929	0.27
BXD03	0.185	0.526
BXD04	1.351	0.566
BXD05	-0.122	0.796
BXD06	-0.051	0.443
BXD07	-0.712	0.473
BXD08	0.07	0.646
BXD09	-0.626	0.561
CAST	0.325	0.227
CCcont	-0.617	0.519
DS01	-0.2	0.585
DS02	-0.603	0.369
DS04	0.557	1.179
DS0c	-0.036	0.844
GP01	-1.394	-0.605
GP02	-1.711	0.9
GP0c	-1.479	-0.449
NOD	0.69	0.973
NZO	0.301	0.459
PWK	0.997	0.0
H37Rv_KO_CtpC	-0.864	-0.3
H37Rv_KO_CtpD	-2.051	0.009
H37Rv_KO_Rv1272	-0.103	-0.503
H37Rv_KO_SugABC	-1.767	0.425
H37Rv_KO_MbtN	0.555	-0.128
Trans05	0.757	-0.163
macrophage_unactivated	1.095	1.433
IL1	-0.326	0.572
Rapamycin	-0.374	1.068
Tcell	-0.248	0.733
GMCSF	0.642	1.288
IFNab	-0.402	0.822
IFNg	-0.056	0.537
IFNg_GMCSF1	1.09	1.449
Rv1432_day32	1.197	0.948
Rv1565c_day32	-0.136	-0.158
secA2_input	-0.7	0.384
delta_Rv3594	0.0	0.594
delta_Rv3717	-0.112	0.074
delta_Rv3811	-0.192	-0.226
delta_Rv0954	-0.238	0.287
PonA1	-0.763	0.184
EccD1_KO	-0.724	0.526
EspI_KO	0.476	0.588
PE35_KO	0.041	-0.155
PPE68_KO	0.253	-0.256
glycerol2	-0.747	0.128
lignocerate	-1.068	0.38
oleate	0.739	0.468
phosphatidylcholine	-0.409	0.462
acetate	-0.904	-0.878
glucAc	-1.654	-0.554
Rv0950ko	-0.787	-0.042
Rv1096ko	-0.618	1.149
Rv3684ko	-0.495	0.386
delta_otsA_trehalose	-0.773	-0.603