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 Rv2459/-

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

	Rv1558/-	Rv2459/-
Fe_supp_jason_reseq	0.248	0.384
low_pH_jason_reseq	-1.022	-1.335
NO_jason_reseq	0.058	-0.273
B6_jason_reseq	0.883	-0.685
MHCII_jason_reseq	1.104	-0.074
Isoniazid02	-0.687	-0.631
Rifampicin4	0.682	0.181
Ethambutol3	-0.305	-0.73
Meropenem3	1.242	-0.042
Vancomycin16	-0.159	-0.997
Rv2680_day32	0.042	-0.285
H37Rv_KO_MarP	0.144	-0.229
hypoxia_3wks	-0.287	-0.219
hypoxia_6wks	-0.507	-0.764
glycerol	-0.503	-0.149
cholesterol	-0.504	0.242
AJ	0.462	0.012
Bibs02	0.487	0.094
Bibs02c	0.649	0.458
BL6	-0.091	0.399
BL6a	0.317	0.494
BXD01	-0.044	-0.628
BXD010	0.523	0.255
BXD011	0.149	0.094
BXD03	0.256	-0.02
BXD04	0.326	-0.297
BXD05	-0.067	0.135
BXD06	0.24	-0.127
BXD07	0.107	0.077
BXD08	0.218	-0.169
BXD09	0.189	-0.013
CAST	0.023	-0.526
CCcont	-0.421	-0.066
DS01	0.645	0.142
DS02	0.501	0.265
DS04	0.479	0.386
DS0c	1.358	0.902
GP01	0.343	0.161
GP02	0.554	1.16
GP0c	-0.201	-0.137
NOD	-0.436	1.206
NZO	0.462	0.366
PWK	0.311	0.153
H37Rv_KO_CtpC	0.312	0.453
H37Rv_KO_CtpD	0.568	0.036
H37Rv_KO_Rv1272	-1.188	0.54
H37Rv_KO_SugABC	-1.189	-0.802
H37Rv_KO_MbtN	0.35	-0.02
Trans05	-0.949	0.383
macrophage_unactivated	0.098	0.243
IL1	0.409	0.362
Rapamycin	0.543	0.018
Tcell	0.186	-0.499
GMCSF	0.399	0.079
IFNab	-0.269	0.145
IFNg	0.123	0.802
IFNg_GMCSF1	0.135	0.622
Rv1432_day32	-0.623	0.609
Rv1565c_day32	-3.116	-1.205
secA2_input	-0.122	-0.11
delta_Rv3594	-0.099	-0.034
delta_Rv3717	-0.186	-0.729
delta_Rv3811	-0.335	-0.042
delta_Rv0954	0.647	0.322
PonA1	0.9	0.309
EccD1_KO	-0.585	0.408
EspI_KO	0.348	0.308
PE35_KO	0.292	0.225
PPE68_KO	0.87	-0.074
glycerol2	0.397	0.761
lignocerate	0.385	0.587
oleate	0.72	0.248
phosphatidylcholine	0.469	0.612
acetate	-0.336	0.973
glucAc	0.241	0.579
Rv0950ko	0.552	-0.157
Rv1096ko	-0.181	-0.187
Rv3684ko	0.095	-0.698
delta_otsA_trehalose	1.305	0.286