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 Rv2767c/-:

update plot	correlation	link to info on gene
Rv0231/fadE4	(cc=0.4735)	info on Rv0231/fadE4
Rv3189/-	(cc=0.452)	info on Rv3189/-
Rv1050/-	(cc=0.4485)	info on Rv1050/-
Rv1709/scpA	(cc=0.4461)	info on Rv1709/scpA
Rv2807/-	(cc=0.4358)	info on Rv2807/-
Rv0073/-	(cc=0.4331)	info on Rv0073/-
Rv1261c/-	(cc=0.4257)	info on Rv1261c/-
Rv1419/-	(cc=0.4203)	info on Rv1419/-
Rv3070/-	(cc=0.4193)	info on Rv3070/-
Rv1365c/rsfA	(cc=0.4124)	info on Rv1365c/rsfA

Correlation of Rv2767c/- with Rv3070/-

Normalized LFCs for Rv2767c/-:
(description and provenance of datasets)

	Rv2767c/-	Rv3070/-
Fe_supp_jason_reseq	0.453	-0.529
low_pH_jason_reseq	-0.731	-0.878
NO_jason_reseq	-0.302	-0.494
B6_jason_reseq	-0.164	-1.15
MHCII_jason_reseq	0.028	-0.669
Isoniazid02	-0.573	-0.035
Rifampicin4	-1.384	-0.996
Ethambutol3	-1.338	-0.524
Meropenem3	-1.438	-0.422
Vancomycin16	-1.228	-0.369
Rv2680_day32	1.591	0.899
H37Rv_KO_MarP	0.683	0.233
hypoxia_3wks	-0.136	-0.088
hypoxia_6wks	-0.89	0.28
glycerol	-0.769	-0.788
cholesterol	-0.311	-0.981
AJ	0.072	1.077
Bibs02	-0.23	0.838
Bibs02c	1.449	1.085
BL6	0.825	0.327
BL6a	1.465	1.378
BXD01	-0.782	0.993
BXD010	0.862	0.792
BXD011	0.391	0.285
BXD03	0.458	1.018
BXD04	0.09	0.43
BXD05	0.533	0.237
BXD06	0.238	1.196
BXD07	0.601	0.75
BXD08	0.009	0.944
BXD09	0.391	0.991
CAST	-0.195	0.586
CCcont	0.018	1.06
DS01	0.332	-0.068
DS02	0.488	0.469
DS04	-0.062	1.018
DS0c	0.888	0.273
GP01	0.77	-0.706
GP02	0.271	-1.474
GP0c	-0.427	-0.117
NOD	0.215	1.015
NZO	0.428	-0.724
PWK	0.084	0.735
H37Rv_KO_CtpC	0.685	0.934
H37Rv_KO_CtpD	0.523	0.44
H37Rv_KO_Rv1272	0.534	0.637
H37Rv_KO_SugABC	-1.813	-1.705
H37Rv_KO_MbtN	-0.631	-1.164
Trans05	0.484	0.445
macrophage_unactivated	-0.455	0.726
IL1	0.543	0.771
Rapamycin	0.654	0.393
Tcell	0.218	0.626
GMCSF	0.85	0.317
IFNab	0.381	0.212
IFNg	0.898	0.831
IFNg_GMCSF1	0.361	1.241
Rv1432_day32	0.51	-0.257
Rv1565c_day32	0.24	0.12
secA2_input	-0.302	-0.177
delta_Rv3594	-0.277	1.054
delta_Rv3717	-0.327	-1.258
delta_Rv3811	-0.694	0.043
delta_Rv0954	0.58	0.89
PonA1	0.185	0.177
EccD1_KO	1.223	-0.082
EspI_KO	1.417	-0.736
PE35_KO	0.411	1.138
PPE68_KO	0.125	0.08
glycerol2	-0.835	0.342
lignocerate	-0.432	0.485
oleate	-0.543	0.116
phosphatidylcholine	-0.618	0.312
acetate	-0.308	0.146
glucAc	-0.141	0.102
Rv0950ko	-0.265	0.709
Rv1096ko	0.229	1.173
Rv3684ko	0.531	2.227
delta_otsA_trehalose	-0.204	0.049