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 Rv3665c/dppB:

update plot	correlation	link to info on gene
Rv3776/-	(cc=0.4675)	info on Rv3776/-
Rv1944c/-	(cc=0.4409)	info on Rv1944c/-
Rv3813c/-	(cc=0.4353)	info on Rv3813c/-
Rv2665/-	(cc=0.4068)	info on Rv2665/-
Rv2804c/-	(cc=0.4004)	info on Rv2804c/-
Rv1845c/blaR	(cc=0.397)	info on Rv1845c/blaR
Rv3481c/-	(cc=0.3932)	info on Rv3481c/-
Rv1100/-	(cc=0.3866)	info on Rv1100/-
Rv2206/-	(cc=0.382)	info on Rv2206/-
Rv1020/mfd	(cc=0.3785)	info on Rv1020/mfd

Correlation of Rv3665c/dppB with Rv1944c/-

Normalized LFCs for Rv3665c/dppB:
(description and provenance of datasets)

	Rv3665c/dppB	Rv1944c/-
Fe_supp_jason_reseq	-0.365	-0.614
low_pH_jason_reseq	2.515	2.561
NO_jason_reseq	-1.982	-0.788
B6_jason_reseq	-2.162	-0.807
MHCII_jason_reseq	-1.4	-1.64
Isoniazid02	-0.506	3.462
Rifampicin4	0.165	0.173
Ethambutol3	1.667	3.199
Meropenem3	-0.689	0.097
Vancomycin16	-0.111	0.17
Rv2680_day32	0.573	-0.039
H37Rv_KO_MarP	-0.272	0.49
hypoxia_3wks	0.327	-0.522
hypoxia_6wks	-0.478	0.0
glycerol	0.654	-0.614
cholesterol	0.854	0.946
AJ	0.751	-0.97
Bibs02	1.142	0.413
Bibs02c	0.474	-0.67
BL6	0.906	0.477
BL6a	0.062	0.044
BXD01	0.0	0.734
BXD010	0.8	0.605
BXD011	0.078	0.323
BXD03	-0.135	0.133
BXD04	-0.524	-0.627
BXD05	-0.636	1.216
BXD06	0.233	0.314
BXD07	0.279	0.549
BXD08	-0.442	0.925
BXD09	0.488	0.196
CAST	1.185	0.367
CCcont	0.585	0.694
DS01	0.975	0.282
DS02	0.321	0.532
DS04	1.744	0.252
DS0c	1.199	1.279
GP01	0.699	0.843
GP02	-0.175	2.041
GP0c	0.834	1.277
NOD	0.205	0.944
NZO	-0.663	-0.517
PWK	0.0	1.269
H37Rv_KO_CtpC	1.949	1.205
H37Rv_KO_CtpD	-0.316	0.344
H37Rv_KO_Rv1272	-1.067	1.093
H37Rv_KO_SugABC	1.302	0.768
H37Rv_KO_MbtN	-0.715	0.08
Trans05	-1.5	-0.126
macrophage_unactivated	-0.593	0.9
IL1	-0.439	-0.89
Rapamycin	-1.099	-0.387
Tcell	0.332	1.388
GMCSF	-0.391	-0.42
IFNab	0.502	0.514
IFNg	-0.502	-0.249
IFNg_GMCSF1	-1.266	0.273
Rv1432_day32	0.0	1.073
Rv1565c_day32	0.646	0.444
secA2_input	-0.167	0.402
delta_Rv3594	-1.071	-0.26
delta_Rv3717	-1.33	0.191
delta_Rv3811	-0.674	-0.327
delta_Rv0954	-0.111	0.213
PonA1	-0.316	0.454
EccD1_KO	-1.168	0.342
EspI_KO	0.493	0.328
PE35_KO	-0.236	0.732
PPE68_KO	-0.928	-0.038
glycerol2	0.261	0.548
lignocerate	0.06	0.258
oleate	-0.345	0.525
phosphatidylcholine	0.492	0.978
acetate	-0.216	-0.279
glucAc	-0.554	-0.194
Rv0950ko	-0.178	-1.933
Rv1096ko	0.172	-0.799
Rv3684ko	-0.498	-2.512
delta_otsA_trehalose	-2.907	-1.08