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 Rv0287/esxG:

update plot	correlation	link to info on gene
Rv2392/cysH	(cc=0.5982)	info on Rv2392/cysH
Rv2445c/ndkA	(cc=0.5357)	info on Rv2445c/ndkA
Rv1298/rpmE	(cc=0.4819)	info on Rv1298/rpmE
Rv3265c/wbbL1	(cc=0.4606)	info on Rv3265c/wbbL1
Rv2507/-	(cc=0.4444)	info on Rv2507/-
Rv0504c/-	(cc=0.4328)	info on Rv0504c/-
Rv0841/-	(cc=0.4327)	info on Rv0841/-
Rv3212/-	(cc=0.4155)	info on Rv3212/-
Rv3649/-	(cc=0.3972)	info on Rv3649/-
Rv2087/-	(cc=0.3869)	info on Rv2087/-

Correlation of Rv0287/esxG with Rv0504c/-

Normalized LFCs for Rv0287/esxG:
(description and provenance of datasets)

	Rv0287/esxG	Rv0504c/-
Fe_supp_jason_reseq	1.897	1.68
low_pH_jason_reseq	0.0	-0.231
NO_jason_reseq	0.0	-0.362
B6_jason_reseq	0.0	-0.153
MHCII_jason_reseq	0.0	-0.135
Isoniazid02	-0.383	0.383
Rifampicin4	0.872	0.0
Ethambutol3	0.27	0.0
Meropenem3	0.497	0.0
Vancomycin16	0.305	0.0
Rv2680_day32	0.0	-2.085
H37Rv_KO_MarP	-1.307	-2.565
hypoxia_3wks	0.0	-1.049
hypoxia_6wks	0.0	-0.263
glycerol	0.0	0.439
cholesterol	0.0	-0.398
AJ	0.0	-0.637
Bibs02	0.348	0.725
Bibs02c	0.0	-0.574
BL6	0.0	-0.343
BL6a	0.0	-0.544
BXD01	0.0	-0.358
BXD010	0.0	-0.352
BXD011	0.0	0.759
BXD03	0.0	-0.371
BXD04	0.0	-0.34
BXD05	0.0	-0.369
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	2.776
DS01	0.0	-0.412
DS02	0.0	-0.597
DS04	0.0	-0.533
DS0c	0.0	1.087
GP01	0.188	-0.271
GP02	0.0	-0.228
GP0c	1.814	-0.357
NOD	0.0	-0.392
NZO	0.0	-0.548
PWK	0.0	-0.539
H37Rv_KO_CtpC	0.309	0.0
H37Rv_KO_CtpD	0.0	0.189
H37Rv_KO_Rv1272	0.0	-0.246
H37Rv_KO_SugABC	0.0	-0.272
H37Rv_KO_MbtN	0.0	0.224
Trans05	0.0	-0.228
macrophage_unactivated	0.0	0.436
IL1	0.0	0.0
Rapamycin	0.0	0.0
Tcell	0.0	1.235
GMCSF	0.0	0.0
IFNab	0.0	0.417
IFNg	0.0	0.0
IFNg_GMCSF1	0.0	0.0
Rv1432_day32	0.0	-0.494
Rv1565c_day32	0.0	-0.924
secA2_input	-1.061	-1.731
delta_Rv3594	0.0	0.197
delta_Rv3717	1.165	0.536
delta_Rv3811	0.0	-0.529
delta_Rv0954	0.756	1.076
PonA1	0.159	1.547
EccD1_KO	2.065	0.51
EspI_KO	-0.394	-0.408
PE35_KO	-0.403	1.625
PPE68_KO	1.113	0.723
glycerol2	0.0	-0.82
lignocerate	0.0	-0.712
oleate	0.0	-0.829
phosphatidylcholine	0.0	-0.819
acetate	0.0	-0.973
glucAc	0.0	-0.605
Rv0950ko	0.416	1.481
Rv1096ko	2.045	0.85
Rv3684ko	0.861	0.249
delta_otsA_trehalose	0.0	-0.818