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 Rv2456c/-:

update plot	correlation	link to info on gene
Rv1831/-	(cc=0.6179)	info on Rv1831/-
Rv2663/-	(cc=0.5981)	info on Rv2663/-
Rv3689/-	(cc=0.5823)	info on Rv3689/-
Rv2833c/ugpB	(cc=0.5803)	info on Rv2833c/ugpB
Rv1387/PPE20	(cc=0.5712)	info on Rv1387/PPE20
Rv0188/-	(cc=0.5689)	info on Rv0188/-
Rv3210c/-	(cc=0.5684)	info on Rv3210c/-
Rv3842c/glpQ1	(cc=0.562)	info on Rv3842c/glpQ1
Rv2243/fabD	(cc=0.5364)	info on Rv2243/fabD
Rv3148/nuoD	(cc=0.5359)	info on Rv3148/nuoD

Correlation of Rv2456c/- with Rv3842c/glpQ1

Normalized LFCs for Rv2456c/-:
(description and provenance of datasets)

	Rv2456c/-	Rv3842c/glpQ1
Fe_supp_jason_reseq	-0.379	-2.242
low_pH_jason_reseq	-1.086	0.574
NO_jason_reseq	0.0	3.631
B6_jason_reseq	0.476	1.38
MHCII_jason_reseq	-0.595	-0.853
Isoniazid02	0.215	0.288
Rifampicin4	0.143	-0.33
Ethambutol3	0.591	2.837
Meropenem3	-0.126	-0.259
Vancomycin16	0.048	0.146
Rv2680_day32	0.302	1.647
H37Rv_KO_MarP	0.071	-1.617
hypoxia_3wks	-0.423	-1.519
hypoxia_6wks	0.355	1.675
glycerol	-0.648	0.016
cholesterol	0.259	-0.252
AJ	-0.224	0.528
Bibs02	-0.301	-0.551
Bibs02c	-0.076	-1.51
BL6	0.922	1.67
BL6a	0.716	2.716
BXD01	0.662	3.451
BXD010	0.612	2.506
BXD011	1.502	4.887
BXD03	0.774	1.946
BXD04	1.111	3.768
BXD05	0.484	2.897
BXD06	0.863	3.915
BXD07	0.971	3.764
BXD08	0.717	3.535
BXD09	0.702	3.421
CAST	0.929	1.655
CCcont	0.332	-0.279
DS01	-0.399	-2.566
DS02	0.0	-3.052
DS04	-0.128	-0.749
DS0c	0.061	-1.941
GP01	0.393	3.019
GP02	0.291	2.711
GP0c	0.461	3.642
NOD	0.428	0.085
NZO	0.321	1.361
PWK	0.186	3.319
H37Rv_KO_CtpC	0.495	-0.514
H37Rv_KO_CtpD	-0.268	0.058
H37Rv_KO_Rv1272	0.562	0.94
H37Rv_KO_SugABC	-0.214	1.215
H37Rv_KO_MbtN	0.886	2.418
Trans05	1.071	1.7
macrophage_unactivated	-0.167	-3.043
IL1	0.077	0.409
Rapamycin	-0.009	-0.497
Tcell	0.502	0.378
GMCSF	0.185	-2.764
IFNab	-0.212	-0.327
IFNg	0.195	-1.139
IFNg_GMCSF1	0.031	-1.339
Rv1432_day32	0.149	3.437
Rv1565c_day32	-0.442	-3.047
secA2_input	-0.092	0.528
delta_Rv3594	0.138	0.229
delta_Rv3717	0.457	2.504
delta_Rv3811	-0.303	1.028
delta_Rv0954	-0.521	-2.01
PonA1	-0.433	-2.098
EccD1_KO	0.556	-1.687
EspI_KO	0.114	-1.928
PE35_KO	-0.12	-2.091
PPE68_KO	-0.266	-2.278
glycerol2	0.338	0.205
lignocerate	0.813	-1.063
oleate	0.386	-0.284
phosphatidylcholine	0.829	-0.633
acetate	0.068	-0.372
glucAc	0.289	-0.425
Rv0950ko	0.416	-1.08
Rv1096ko	0.329	-0.935
Rv3684ko	0.37	0.521
delta_otsA_trehalose	-1.403	0.282