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 Rv2593c/ruvA:

update plot	correlation	link to info on gene
Rv3274c/fadE25	(cc=0.4984)	info on Rv3274c/fadE25
Rv1157c/-	(cc=0.3966)	info on Rv1157c/-
Rv3593/lpqF	(cc=0.3871)	info on Rv3593/lpqF
Rv0495c/-	(cc=0.3836)	info on Rv0495c/-
Rv2522c/-	(cc=0.3582)	info on Rv2522c/-
Rv0324/-	(cc=0.3537)	info on Rv0324/-
Rv2198c/mmpS3	(cc=0.3531)	info on Rv2198c/mmpS3
Rv1423/whiA	(cc=0.3485)	info on Rv1423/whiA
Rv3243c/-	(cc=0.3458)	info on Rv3243c/-
Rv0859/fadA	(cc=0.337)	info on Rv0859/fadA

Correlation of Rv2593c/ruvA with Rv0859/fadA

Normalized LFCs for Rv2593c/ruvA:
(description and provenance of datasets)

	Rv2593c/ruvA	Rv0859/fadA
Fe_supp_jason_reseq	0.218	-0.688
low_pH_jason_reseq	0.0	-0.877
NO_jason_reseq	0.0	-2.793
B6_jason_reseq	0.0	-1.334
MHCII_jason_reseq	0.0	-0.512
Isoniazid02	0.0	1.288
Rifampicin4	0.0	0.157
Ethambutol3	0.153	0.37
Meropenem3	0.151	-0.509
Vancomycin16	0.0	-0.499
Rv2680_day32	0.0	-0.554
H37Rv_KO_MarP	-0.255	-0.384
hypoxia_3wks	0.0	1.049
hypoxia_6wks	0.0	-1.075
glycerol	1.355	2.817
cholesterol	0.145	2.515
AJ	0.0	-0.751
Bibs02	0.0	-0.775
Bibs02c	0.0	0.629
BL6	0.0	-0.187
BL6a	0.0	0.973
BXD01	0.0	-0.552
BXD010	0.0	-0.543
BXD011	0.0	-0.412
BXD03	0.0	-0.573
BXD04	0.0	-0.524
BXD05	0.0	-0.314
BXD06	0.0	-0.311
BXD07	0.0	-0.323
BXD08	0.0	-0.431
BXD09	0.0	-0.328
CAST	0.0	-0.344
CCcont	0.0	2.961
DS01	0.0	2.421
DS02	0.0	0.414
DS04	0.0	1.938
DS0c	0.0	2.637
GP01	0.0	-0.418
GP02	0.0	-0.353
GP0c	0.0	-0.551
NOD	0.0	-0.335
NZO	0.0	-0.845
PWK	0.0	-0.635
H37Rv_KO_CtpC	0.0	-0.526
H37Rv_KO_CtpD	0.0	0.0
H37Rv_KO_Rv1272	0.0	-0.102
H37Rv_KO_SugABC	0.0	0.817
H37Rv_KO_MbtN	0.0	0.362
Trans05	0.0	-0.423
macrophage_unactivated	0.0	0.915
IL1	0.0	-1.077
Rapamycin	0.0	-1.114
Tcell	0.0	-1.183
GMCSF	0.0	-0.449
IFNab	0.0	-0.514
IFNg	0.0	-0.703
IFNg_GMCSF1	0.0	-1.141
Rv1432_day32	0.0	0.0
Rv1565c_day32	0.0	-0.559
secA2_input	-0.157	0.878
delta_Rv3594	0.0	2.896
delta_Rv3717	-0.331	0.165
delta_Rv3811	-0.391	2.391
delta_Rv0954	0.416	3.509
PonA1	-0.304	0.223
EccD1_KO	0.414	0.395
EspI_KO	-0.394	1.609
PE35_KO	0.0	1.324
PPE68_KO	-0.442	1.805
glycerol2	0.0	0.528
lignocerate	0.0	-0.666
oleate	0.0	-3.56
phosphatidylcholine	0.0	-0.265
acetate	1.662	2.937
glucAc	0.0	1.171
Rv0950ko	-0.727	-2.237
Rv1096ko	-0.347	-3.372
Rv3684ko	0.0	-1.985
delta_otsA_trehalose	0.35	-0.39