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 Rv3766/-:

update plot	correlation	link to info on gene
Rv3607c/folB	(cc=0.5235)	info on Rv3607c/folB
Rv3295/-	(cc=0.507)	info on Rv3295/-
Rv0755c/PPE12	(cc=0.4889)	info on Rv0755c/PPE12
Rv1033c/trcR	(cc=0.4611)	info on Rv1033c/trcR
Rv1646/PE17	(cc=0.4608)	info on Rv1646/PE17
Rv2332/mez	(cc=0.4538)	info on Rv2332/mez
Rv3749c/-	(cc=0.4486)	info on Rv3749c/-
Rv1087A/-	(cc=0.4465)	info on Rv1087A/-
Rv1041c/-	(cc=0.438)	info on Rv1041c/-
Rv3018c/PPE46	(cc=0.4327)	info on Rv3018c/PPE46

Correlation of Rv3766/- with Rv3018c/PPE46

Normalized LFCs for Rv3766/-:
(description and provenance of datasets)

	Rv3766/-	Rv3018c/PPE46
Fe_supp_jason_reseq	1.023	0.379
low_pH_jason_reseq	-0.11	-0.125
NO_jason_reseq	-0.042	0.391
B6_jason_reseq	0.625	0.618
MHCII_jason_reseq	2.035	0.516
Isoniazid02	0.402	0.911
Rifampicin4	0.412	0.921
Ethambutol3	0.185	1.828
Meropenem3	0.056	0.552
Vancomycin16	-0.085	0.446
Rv2680_day32	1.218	0.505
H37Rv_KO_MarP	0.343	0.274
hypoxia_3wks	-0.319	-0.471
hypoxia_6wks	-0.345	-0.173
glycerol	-0.192	0.181
cholesterol	0.302	0.214
AJ	1.839	0.706
Bibs02	0.527	0.576
Bibs02c	-0.317	0.117
BL6	-1.424	0.246
BL6a	0.716	0.304
BXD01	0.644	0.339
BXD010	0.634	0.369
BXD011	-0.149	0.524
BXD03	0.178	0.274
BXD04	1.352	-0.046
BXD05	0.605	0.611
BXD06	0.933	0.556
BXD07	0.301	0.281
BXD08	0.3	0.433
BXD09	1.073	0.208
CAST	1.126	0.676
CCcont	-1.082	0.173
DS01	0.57	0.318
DS02	0.0	0.016
DS04	0.603	0.287
DS0c	0.416	0.107
GP01	-0.485	0.435
GP02	-0.672	0.288
GP0c	-0.891	-0.339
NOD	2.341	1.173
NZO	1.821	0.331
PWK	1.113	0.628
H37Rv_KO_CtpC	0.884	0.613
H37Rv_KO_CtpD	1.459	0.758
H37Rv_KO_Rv1272	0.578	0.949
H37Rv_KO_SugABC	0.358	0.64
H37Rv_KO_MbtN	-0.789	0.582
Trans05	-0.259	0.563
macrophage_unactivated	-0.988	-0.117
IL1	-0.771	-0.807
Rapamycin	-1.571	-0.571
Tcell	-0.482	-1.062
GMCSF	-0.549	-0.536
IFNab	-1.587	-1.24
IFNg	-1.269	-1.018
IFNg_GMCSF1	-0.496	-0.613
Rv1432_day32	-0.257	0.229
Rv1565c_day32	2.072	0.55
secA2_input	0.067	-0.706
delta_Rv3594	0.439	-0.128
delta_Rv3717	0.409	-0.837
delta_Rv3811	0.115	-0.333
delta_Rv0954	0.992	-0.335
PonA1	-0.485	-0.404
EccD1_KO	1.605	-0.22
EspI_KO	2.878	0.163
PE35_KO	-2.526	-0.02
PPE68_KO	1.945	0.138
glycerol2	1.666	0.807
lignocerate	1.218	1.119
oleate	0.768	0.055
phosphatidylcholine	1.34	0.961
acetate	-0.69	0.987
glucAc	0.467	0.667
Rv0950ko	0.066	0.021
Rv1096ko	0.317	-0.232
Rv3684ko	0.878	-0.567
delta_otsA_trehalose	0.05	-0.458