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 Rv3272/-:

update plot	correlation	link to info on gene
Rv3273/-	(cc=0.6682)	info on Rv3273/-
Rv2620c/-	(cc=0.5035)	info on Rv2620c/-
Rv1809/PPE33	(cc=0.4931)	info on Rv1809/PPE33
Rv1808/PPE32	(cc=0.4802)	info on Rv1808/PPE32
Rv1405c/-	(cc=0.4785)	info on Rv1405c/-
Rv2851c/-	(cc=0.4743)	info on Rv2851c/-
Rv3535c/hsaG	(cc=0.4618)	info on Rv3535c/hsaG
Rv1590/-	(cc=0.4505)	info on Rv1590/-
Rv0485/-	(cc=0.45)	info on Rv0485/-
Rv2475c/-	(cc=0.4499)	info on Rv2475c/-

Correlation of Rv3272/- with Rv2851c/-

Normalized LFCs for Rv3272/-:
(description and provenance of datasets)

	Rv3272/-	Rv2851c/-
Fe_supp_jason_reseq	-1.133	-0.021
low_pH_jason_reseq	-1.787	-0.852
NO_jason_reseq	-1.864	2.539
B6_jason_reseq	-1.082	0.843
MHCII_jason_reseq	-0.511	1.51
Isoniazid02	0.821	0.781
Rifampicin4	-0.707	-0.319
Ethambutol3	-0.535	0.14
Meropenem3	0.107	0.478
Vancomycin16	-0.464	-0.653
Rv2680_day32	-0.522	1.779
H37Rv_KO_MarP	0.305	0.562
hypoxia_3wks	0.829	0.809
hypoxia_6wks	0.737	0.472
glycerol	-1.456	0.884
cholesterol	-0.577	-1.323
AJ	-1.331	-0.484
Bibs02	-0.848	0.0
Bibs02c	0.3	-0.217
BL6	0.749	0.463
BL6a	-0.442	0.08
BXD01	-0.519	0.373
BXD010	-0.105	0.052
BXD011	-0.623	0.149
BXD03	-0.066	-0.99
BXD04	-0.39	0.744
BXD05	-0.727	0.514
BXD06	-0.081	-0.091
BXD07	-0.73	-0.131
BXD08	-0.499	0.589
BXD09	-0.413	1.403
CAST	-1.026	-1.333
CCcont	-0.312	0.612
DS01	-0.517	-0.517
DS02	0.134	1.549
DS04	0.332	-0.632
DS0c	-0.79	0.635
GP01	-0.004	2.288
GP02	-0.682	0.201
GP0c	-1.11	1.225
NOD	-0.818	-0.835
NZO	-1.315	0.533
PWK	-1.54	-0.776
H37Rv_KO_CtpC	0.571	0.248
H37Rv_KO_CtpD	-0.974	0.484
H37Rv_KO_Rv1272	-0.122	0.609
H37Rv_KO_SugABC	-1.19	2.202
H37Rv_KO_MbtN	-0.393	1.314
Trans05	-0.135	1.236
macrophage_unactivated	0.0	0.956
IL1	0.706	1.777
Rapamycin	1.083	2.55
Tcell	-0.078	1.033
GMCSF	0.061	1.067
IFNab	0.0	0.051
IFNg	0.706	3.814
IFNg_GMCSF1	0.534	4.286
Rv1432_day32	-0.309	1.601
Rv1565c_day32	-2.213	-0.31
secA2_input	-0.717	-0.56
delta_Rv3594	-0.078	0.716
delta_Rv3717	0.081	0.405
delta_Rv3811	0.0	0.882
delta_Rv0954	0.482	0.031
PonA1	-0.31	-1.27
EccD1_KO	0.349	0.789
EspI_KO	0.428	0.819
PE35_KO	-0.286	0.289
PPE68_KO	-0.128	0.451
glycerol2	1.75	3.544
lignocerate	0.118	3.187
oleate	-0.998	-1.418
phosphatidylcholine	1.45	3.27
acetate	0.587	2.809
glucAc	0.529	2.649
Rv0950ko	-0.084	0.585
Rv1096ko	0.398	0.558
Rv3684ko	0.029	1.041
delta_otsA_trehalose	0.9	2.311