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 Rv1889c/-:

update plot	correlation	link to info on gene
Rv2789c/fadE21	(cc=0.5487)	info on Rv2789c/fadE21
Rv0028/-	(cc=0.5288)	info on Rv0028/-
Rv3524/-	(cc=0.5119)	info on Rv3524/-
Rv0246/-	(cc=0.5104)	info on Rv0246/-
Rv2430c/PPE41	(cc=0.505)	info on Rv2430c/PPE41
Rv1176c/-	(cc=0.4965)	info on Rv1176c/-
Rv1021/-	(cc=0.4961)	info on Rv1021/-
Rv3150/nuoF	(cc=0.4898)	info on Rv3150/nuoF
Rv1059/-	(cc=0.4857)	info on Rv1059/-
Rv1500/-	(cc=0.4801)	info on Rv1500/-

Correlation of Rv1889c/- with Rv1021/-

Normalized LFCs for Rv1889c/-:
(description and provenance of datasets)

	Rv1889c/-	Rv1021/-
Fe_supp_jason_reseq	-0.237	1.656
low_pH_jason_reseq	-0.223	-0.816
NO_jason_reseq	-1.515	-0.116
B6_jason_reseq	-0.589	0.047
MHCII_jason_reseq	-2.209	-0.194
Isoniazid02	0.201	-0.105
Rifampicin4	0.298	-0.726
Ethambutol3	-0.302	-0.929
Meropenem3	-0.397	-0.086
Vancomycin16	0.061	0.573
Rv2680_day32	-0.119	0.139
H37Rv_KO_MarP	0.55	-0.43
hypoxia_3wks	-0.53	0.71
hypoxia_6wks	-0.378	1.054
glycerol	-2.319	-0.462
cholesterol	-2.203	-0.427
AJ	-1.377	-0.847
Bibs02	-0.348	0.518
Bibs02c	0.174	0.205
BL6	0.792	2.07
BL6a	1.4	1.583
BXD01	0.654	1.689
BXD010	1.514	1.961
BXD011	1.527	1.547
BXD03	1.267	2.232
BXD04	-0.113	1.528
BXD05	2.079	1.842
BXD06	0.833	1.796
BXD07	0.809	1.958
BXD08	0.94	1.375
BXD09	1.286	1.653
CAST	1.436	0.592
CCcont	1.016	1.9
DS01	0.236	0.34
DS02	0.217	-0.452
DS04	-2.129	2.042
DS0c	1.435	1.188
GP01	1.731	1.3
GP02	0.069	1.146
GP0c	0.521	0.482
NOD	0.646	-0.662
NZO	-1.589	0.165
PWK	0.163	0.223
H37Rv_KO_CtpC	-1.783	0.954
H37Rv_KO_CtpD	2.528	1.002
H37Rv_KO_Rv1272	2.005	1.674
H37Rv_KO_SugABC	-1.756	0.896
H37Rv_KO_MbtN	-0.359	0.382
Trans05	1.798	1.876
macrophage_unactivated	2.834	0.562
IL1	-0.128	2.37
Rapamycin	0.252	2.391
Tcell	-1.75	-1.434
GMCSF	0.385	1.917
IFNab	2.001	1.527
IFNg	1.449	1.523
IFNg_GMCSF1	1.159	1.986
Rv1432_day32	-1.328	-1.639
Rv1565c_day32	-1.275	1.663
secA2_input	-0.031	-0.534
delta_Rv3594	-1.632	-0.601
delta_Rv3717	-0.084	-0.927
delta_Rv3811	-0.755	-0.5
delta_Rv0954	0.226	-1.35
PonA1	-0.268	0.249
EccD1_KO	-2.375	-0.789
EspI_KO	-0.918	-0.128
PE35_KO	-0.971	0.446
PPE68_KO	-1.565	-0.144
glycerol2	0.209	0.209
lignocerate	0.43	0.689
oleate	-0.871	0.388
phosphatidylcholine	0.078	0.448
acetate	-0.198	0.745
glucAc	0.759	0.358
Rv0950ko	0.356	0.938
Rv1096ko	-1.285	0.398
Rv3684ko	-0.111	0.134
delta_otsA_trehalose	-0.016	-1.021