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 Rv2789c/fadE21

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

	Rv1889c/-	Rv2789c/fadE21
Fe_supp_jason_reseq	-0.237	0.182
low_pH_jason_reseq	-0.223	-1.134
NO_jason_reseq	-1.515	-0.788
B6_jason_reseq	-0.589	-0.752
MHCII_jason_reseq	-2.209	-0.446
Isoniazid02	0.201	-0.096
Rifampicin4	0.298	0.087
Ethambutol3	-0.302	0.32
Meropenem3	-0.397	0.662
Vancomycin16	0.061	0.626
Rv2680_day32	-0.119	-0.554
H37Rv_KO_MarP	0.55	0.858
hypoxia_3wks	-0.53	-0.116
hypoxia_6wks	-0.378	-0.123
glycerol	-2.319	-0.335
cholesterol	-2.203	0.208
AJ	-1.377	-0.072
Bibs02	-0.348	-0.115
Bibs02c	0.174	2.292
BL6	0.792	1.213
BL6a	1.4	1.992
BXD01	0.654	1.215
BXD010	1.514	0.967
BXD011	1.527	1.017
BXD03	1.267	1.099
BXD04	-0.113	0.073
BXD05	2.079	0.726
BXD06	0.833	0.645
BXD07	0.809	0.846
BXD08	0.94	1.224
BXD09	1.286	1.018
CAST	1.436	-0.382
CCcont	1.016	1.832
DS01	0.236	1.562
DS02	0.217	1.134
DS04	-2.129	0.059
DS0c	1.435	2.641
GP01	1.731	2.281
GP02	0.069	1.632
GP0c	0.521	1.322
NOD	0.646	2.556
NZO	-1.589	-1.107
PWK	0.163	0.332
H37Rv_KO_CtpC	-1.783	1.93
H37Rv_KO_CtpD	2.528	1.332
H37Rv_KO_Rv1272	2.005	0.084
H37Rv_KO_SugABC	-1.756	-1.168
H37Rv_KO_MbtN	-0.359	0.253
Trans05	1.798	0.554
macrophage_unactivated	2.834	1.509
IL1	-0.128	0.297
Rapamycin	0.252	1.114
Tcell	-1.75	0.401
GMCSF	0.385	-0.069
IFNab	2.001	0.514
IFNg	1.449	0.748
IFNg_GMCSF1	1.159	0.534
Rv1432_day32	-1.328	0.668
Rv1565c_day32	-1.275	0.231
secA2_input	-0.031	-0.571
delta_Rv3594	-1.632	-0.167
delta_Rv3717	-0.084	-0.347
delta_Rv3811	-0.755	-0.195
delta_Rv0954	0.226	-0.027
PonA1	-0.268	-0.471
EccD1_KO	-2.375	-1.0
EspI_KO	-0.918	-1.064
PE35_KO	-0.971	-0.755
PPE68_KO	-1.565	-1.046
glycerol2	0.209	1.379
lignocerate	0.43	1.61
oleate	-0.871	0.342
phosphatidylcholine	0.078	1.49
acetate	-0.198	0.973
glucAc	0.759	1.254
Rv0950ko	0.356	0.712
Rv1096ko	-1.285	-0.443
Rv3684ko	-0.111	0.295
delta_otsA_trehalose	-0.016	-0.965