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 Rv0925c/-:

update plot	correlation	link to info on gene
Rv3291c/lrpA	(cc=0.536)	info on Rv3291c/lrpA
Rv0811c/-	(cc=0.4989)	info on Rv0811c/-
Rv3852/hns	(cc=0.4868)	info on Rv3852/hns
Rv3162c/-	(cc=0.4821)	info on Rv3162c/-
Rv1545/-	(cc=0.4746)	info on Rv1545/-
Rv3233c/-	(cc=0.4632)	info on Rv3233c/-
Rv3566c/nat	(cc=0.4545)	info on Rv3566c/nat
Rv1419/-	(cc=0.4473)	info on Rv1419/-
Rv0908/ctpE	(cc=0.446)	info on Rv0908/ctpE
Rv1125/-	(cc=0.4454)	info on Rv1125/-

Correlation of Rv0925c/- with Rv3291c/lrpA

Normalized LFCs for Rv0925c/-:
(description and provenance of datasets)

	Rv0925c/-	Rv3291c/lrpA
Fe_supp_jason_reseq	-0.339	-0.578
low_pH_jason_reseq	0.445	2.029
NO_jason_reseq	0.045	-0.601
B6_jason_reseq	0.55	-0.222
MHCII_jason_reseq	-0.339	-0.252
Isoniazid02	-1.323	-2.93
Rifampicin4	-0.06	0.349
Ethambutol3	-1.096	-2.265
Meropenem3	-1.051	-2.83
Vancomycin16	-0.692	-0.844
Rv2680_day32	0.141	-1.684
H37Rv_KO_MarP	0.514	-0.327
hypoxia_3wks	-0.574	0.0
hypoxia_6wks	-0.365	1.186
glycerol	-0.696	-1.232
cholesterol	-0.09	-0.36
AJ	-0.166	-0.145
Bibs02	0.195	0.54
Bibs02c	0.062	0.2
BL6	0.686	0.98
BL6a	0.125	0.702
BXD01	0.082	0.461
BXD010	-0.529	1.512
BXD011	-0.221	1.021
BXD03	-0.22	0.626
BXD04	-0.171	0.752
BXD05	-0.283	0.863
BXD06	-0.205	0.967
BXD07	-0.024	0.641
BXD08	-0.272	0.509
BXD09	-0.451	0.789
CAST	-0.153	0.344
CCcont	-0.229	0.058
DS01	-0.051	-0.412
DS02	0.29	-0.044
DS04	0.153	0.687
DS0c	-0.126	0.324
GP01	-0.795	-0.756
GP02	-0.952	-0.972
GP0c	-0.942	-0.29
NOD	0.465	-0.14
NZO	0.051	-0.211
PWK	0.661	0.152
H37Rv_KO_CtpC	-1.017	-0.067
H37Rv_KO_CtpD	-0.548	1.14
H37Rv_KO_Rv1272	0.965	0.52
H37Rv_KO_SugABC	0.709	2.654
H37Rv_KO_MbtN	-0.018	1.817
Trans05	0.512	0.406
macrophage_unactivated	0.167	-0.271
IL1	-0.021	-0.525
Rapamycin	-0.083	-0.543
Tcell	-0.179	-0.837
GMCSF	0.259	-0.858
IFNab	-0.541	-0.68
IFNg	0.227	-0.823
IFNg_GMCSF1	0.308	-0.223
Rv1432_day32	-0.113	-0.239
Rv1565c_day32	0.417	0.251
secA2_input	0.473	0.421
delta_Rv3594	-0.413	-0.746
delta_Rv3717	-0.613	-1.711
delta_Rv3811	-0.706	-0.815
delta_Rv0954	-0.178	0.171
PonA1	-0.105	-0.167
EccD1_KO	0.408	0.793
EspI_KO	0.431	0.662
PE35_KO	0.84	1.304
PPE68_KO	0.595	0.71
glycerol2	-0.439	-0.911
lignocerate	-0.028	-0.161
oleate	-0.197	0.308
phosphatidylcholine	-0.399	-0.328
acetate	-0.618	0.487
glucAc	-0.504	-0.614
Rv0950ko	0.202	0.633
Rv1096ko	1.782	1.236
Rv3684ko	1.179	0.809
delta_otsA_trehalose	0.202	0.274