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 Rv1558/-:

update plot	correlation	link to info on gene
Rv3633/-	(cc=0.5149)	info on Rv3633/-
Rv2972c/-	(cc=0.4966)	info on Rv2972c/-
Rv0726c/-	(cc=0.439)	info on Rv0726c/-
Rv3312A/-	(cc=0.4323)	info on Rv3312A/-
Rv3451/cut3	(cc=0.4274)	info on Rv3451/cut3
Rv1719/-	(cc=0.3898)	info on Rv1719/-
Rv3826/fadD23	(cc=0.3817)	info on Rv3826/fadD23
Rv0873/fadE10	(cc=0.3783)	info on Rv0873/fadE10
Rv0530/-	(cc=0.3752)	info on Rv0530/-
Rv2459/-	(cc=0.373)	info on Rv2459/-

Correlation of Rv1558/- with Rv3451/cut3

Normalized LFCs for Rv1558/-:
(description and provenance of datasets)

	Rv1558/-	Rv3451/cut3
Fe_supp_jason_reseq	0.248	0.147
low_pH_jason_reseq	-1.022	-0.683
NO_jason_reseq	0.058	0.326
B6_jason_reseq	0.883	0.145
MHCII_jason_reseq	1.104	0.496
Isoniazid02	-0.687	-0.822
Rifampicin4	0.682	0.13
Ethambutol3	-0.305	-0.68
Meropenem3	1.242	-0.811
Vancomycin16	-0.159	-0.594
Rv2680_day32	0.042	0.388
H37Rv_KO_MarP	0.144	0.433
hypoxia_3wks	-0.287	0.159
hypoxia_6wks	-0.507	-0.76
glycerol	-0.503	0.451
cholesterol	-0.504	0.083
AJ	0.462	0.37
Bibs02	0.487	0.997
Bibs02c	0.649	0.574
BL6	-0.091	0.049
BL6a	0.317	-0.022
BXD01	-0.044	-0.2
BXD010	0.523	-0.432
BXD011	0.149	-0.35
BXD03	0.256	0.015
BXD04	0.326	-0.316
BXD05	-0.067	-0.156
BXD06	0.24	-0.398
BXD07	0.107	0.144
BXD08	0.218	-0.568
BXD09	0.189	-0.239
CAST	0.023	-0.017
CCcont	-0.421	-0.945
DS01	0.645	0.39
DS02	0.501	-0.361
DS04	0.479	0.344
DS0c	1.358	0.13
GP01	0.343	0.354
GP02	0.554	-0.031
GP0c	-0.201	-0.2
NOD	-0.436	0.547
NZO	0.462	-0.022
PWK	0.311	0.318
H37Rv_KO_CtpC	0.312	-0.162
H37Rv_KO_CtpD	0.568	0.53
H37Rv_KO_Rv1272	-1.188	-0.793
H37Rv_KO_SugABC	-1.189	-0.052
H37Rv_KO_MbtN	0.35	-0.793
Trans05	-0.949	-0.58
macrophage_unactivated	0.098	-0.294
IL1	0.409	-0.101
Rapamycin	0.543	0.509
Tcell	0.186	-0.89
GMCSF	0.399	0.554
IFNab	-0.269	-0.07
IFNg	0.123	-0.315
IFNg_GMCSF1	0.135	-0.273
Rv1432_day32	-0.623	0.253
Rv1565c_day32	-3.116	-1.115
secA2_input	-0.122	-0.128
delta_Rv3594	-0.099	-0.62
delta_Rv3717	-0.186	-0.526
delta_Rv3811	-0.335	-1.112
delta_Rv0954	0.647	0.08
PonA1	0.9	-0.075
EccD1_KO	-0.585	0.332
EspI_KO	0.348	0.511
PE35_KO	0.292	0.0
PPE68_KO	0.87	0.246
glycerol2	0.397	-0.254
lignocerate	0.385	-0.684
oleate	0.72	0.5
phosphatidylcholine	0.469	-0.153
acetate	-0.336	-0.72
glucAc	0.241	-1.146
Rv0950ko	0.552	0.087
Rv1096ko	-0.181	0.069
Rv3684ko	0.095	-0.193
delta_otsA_trehalose	1.305	0.731