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 Rv1530/adh:

update plot	correlation	link to info on gene
Rv1526c/-	(cc=0.533)	info on Rv1526c/-
Rv1175c/fadH	(cc=0.44)	info on Rv1175c/fadH
Rv2575/-	(cc=0.4046)	info on Rv2575/-
Rv1548c/PPE21	(cc=0.3944)	info on Rv1548c/PPE21
Rv1167c/-	(cc=0.394)	info on Rv1167c/-
Rv0254c/cobU	(cc=0.3911)	info on Rv0254c/cobU
Rv2147c/-	(cc=0.3906)	info on Rv2147c/-
Rv3545c/cyp125	(cc=0.3814)	info on Rv3545c/cyp125
Rv2038c/-	(cc=0.38)	info on Rv2038c/-
Rv2345/-	(cc=0.3752)	info on Rv2345/-

Correlation of Rv1530/adh with Rv2147c/-

Normalized LFCs for Rv1530/adh:
(description and provenance of datasets)

	Rv1530/adh	Rv2147c/-
Fe_supp_jason_reseq	-0.429	-1.733
low_pH_jason_reseq	0.318	0.345
NO_jason_reseq	0.173	-0.438
B6_jason_reseq	-1.638	-1.49
MHCII_jason_reseq	-0.594	-0.968
Isoniazid02	-0.509	0.284
Rifampicin4	0.712	0.731
Ethambutol3	-0.496	0.0
Meropenem3	-0.419	0.353
Vancomycin16	-0.058	-0.785
Rv2680_day32	-0.921	-1.559
H37Rv_KO_MarP	0.667	-2.052
hypoxia_3wks	0.0	0.12
hypoxia_6wks	0.384	0.77
glycerol	0.541	-0.287
cholesterol	0.141	-0.917
AJ	1.365	-0.713
Bibs02	-0.729	0.229
Bibs02c	-0.409	-0.867
BL6	-0.033	2.015
BL6a	0.369	0.346
BXD01	0.065	0.441
BXD010	-0.033	0.703
BXD011	0.264	1.578
BXD03	1.111	-0.45
BXD04	0.0	0.848
BXD05	1.058	0.855
BXD06	0.249	0.916
BXD07	0.258	0.22
BXD08	-0.26	0.605
BXD09	0.534	0.907
CAST	-0.38	-1.625
CCcont	0.18	0.917
DS01	-0.123	-1.495
DS02	-0.866	-1.303
DS04	-1.086	-0.499
DS0c	-0.947	-1.09
GP01	-0.358	1.579
GP02	-0.934	0.281
GP0c	0.908	1.526
NOD	0.854	-1.129
NZO	0.413	-1.195
PWK	-0.102	-0.504
H37Rv_KO_CtpC	0.956	0.892
H37Rv_KO_CtpD	1.399	1.682
H37Rv_KO_Rv1272	1.299	1.279
H37Rv_KO_SugABC	1.981	1.939
H37Rv_KO_MbtN	0.235	0.794
Trans05	-0.571	1.45
macrophage_unactivated	1.376	0.167
IL1	0.552	1.059
Rapamycin	0.169	0.687
Tcell	0.091	0.42
GMCSF	0.491	0.591
IFNab	0.635	0.275
IFNg	0.561	-0.072
IFNg_GMCSF1	-0.273	0.405
Rv1432_day32	-0.697	0.933
Rv1565c_day32	0.431	0.818
secA2_input	1.13	0.255
delta_Rv3594	0.603	1.767
delta_Rv3717	0.287	1.939
delta_Rv3811	-0.126	0.996
delta_Rv0954	0.809	-0.021
PonA1	0.526	-1.117
EccD1_KO	0.599	0.71
EspI_KO	0.077	-0.588
PE35_KO	0.312	-0.42
PPE68_KO	0.086	0.298
glycerol2	0.115	2.091
lignocerate	0.569	2.954
oleate	0.06	0.123
phosphatidylcholine	0.521	2.342
acetate	0.924	2.733
glucAc	0.689	2.576
Rv0950ko	-0.706	-1.646
Rv1096ko	-0.881	-0.241
Rv3684ko	-0.413	-0.174
delta_otsA_trehalose	0.621	0.079