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 Rv1406/fmt:

update plot	correlation	link to info on gene
Rv3671c/-	(cc=0.7245)	info on Rv3671c/-
Rv2392/cysH	(cc=0.6574)	info on Rv2392/cysH
Rv3101c/ftsX	(cc=0.5706)	info on Rv3101c/ftsX
Rv2439c/proB	(cc=0.5567)	info on Rv2439c/proB
Rv0811c/-	(cc=0.5484)	info on Rv0811c/-
Rv3258c/-	(cc=0.5471)	info on Rv3258c/-
Rv3789/-	(cc=0.5139)	info on Rv3789/-
Rv2229c/-	(cc=0.4912)	info on Rv2229c/-
Rv3670/ephE	(cc=0.4553)	info on Rv3670/ephE
Rv0736/rslA	(cc=0.4406)	info on Rv0736/rslA

Correlation of Rv1406/fmt with Rv2229c/-

Normalized LFCs for Rv1406/fmt:
(description and provenance of datasets)

	Rv1406/fmt	Rv2229c/-
Fe_supp_jason_reseq	0.0	0.898
low_pH_jason_reseq	0.231	2.197
NO_jason_reseq	0.0	0.0
B6_jason_reseq	0.0	-1.811
MHCII_jason_reseq	0.0	-1.595
Isoniazid02	0.0	-0.634
Rifampicin4	0.0	1.527
Ethambutol3	0.0	0.686
Meropenem3	0.0	-0.424
Vancomycin16	0.0	0.753
Rv2680_day32	0.0	1.287
H37Rv_KO_MarP	-1.197	-1.071
hypoxia_3wks	0.0	0.0
hypoxia_6wks	0.0	0.0
glycerol	0.0	-0.554
cholesterol	0.0	-0.398
AJ	0.0	-0.637
Bibs02	0.0	0.621
Bibs02c	0.0	-0.365
BL6	0.0	-0.343
BL6a	0.0	-0.544
BXD01	0.0	-0.358
BXD010	0.0	-0.352
BXD011	0.127	-0.35
BXD03	0.0	-0.371
BXD04	0.0	-0.34
BXD05	0.0	-0.235
BXD06	0.0	-0.366
BXD07	0.0	-0.38
BXD08	0.0	-0.365
BXD09	0.0	-0.386
CAST	0.0	-0.632
CCcont	0.0	-0.41
DS01	0.0	-0.648
DS02	0.0	-0.597
DS04	0.0	1.244
DS0c	0.0	-0.596
GP01	0.0	-0.271
GP02	0.0	-0.228
GP0c	0.0	-0.357
NOD	0.0	1.235
NZO	0.0	-0.548
PWK	0.0	-0.539
H37Rv_KO_CtpC	0.0	-0.446
H37Rv_KO_CtpD	0.0	-0.348
H37Rv_KO_Rv1272	0.0	-0.387
H37Rv_KO_SugABC	0.0	-0.173
H37Rv_KO_MbtN	0.0	0.827
Trans05	0.0	-0.359
macrophage_unactivated	0.0	0.0
IL1	0.0	0.0
Rapamycin	0.0	0.0
Tcell	0.0	0.0
GMCSF	0.0	0.0
IFNab	0.0	0.0
IFNg	0.0	0.0
IFNg_GMCSF1	0.0	0.0
Rv1432_day32	0.0	0.0
Rv1565c_day32	0.0	-0.924
secA2_input	0.216	0.87
delta_Rv3594	0.315	3.374
delta_Rv3717	-0.477	-0.303
delta_Rv3811	0.446	2.357
delta_Rv0954	-0.149	-0.49
PonA1	-0.437	0.0
EccD1_KO	-0.378	-3.167
EspI_KO	-0.687	0.767
PE35_KO	-0.335	-2.409
PPE68_KO	0.0	-1.872
glycerol2	0.0	0.0
lignocerate	0.0	0.0
oleate	0.0	0.0
phosphatidylcholine	0.0	0.0
acetate	0.0	0.0
glucAc	0.0	0.0
Rv0950ko	-0.416	0.832
Rv1096ko	1.632	2.268
Rv3684ko	1.464	2.312
delta_otsA_trehalose	0.0	1.661