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 Rv0231/fadE4

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

	Rv2767c/-	Rv0231/fadE4
Fe_supp_jason_reseq	0.453	-0.27
low_pH_jason_reseq	-0.731	-0.589
NO_jason_reseq	-0.302	0.055
B6_jason_reseq	-0.164	-0.164
MHCII_jason_reseq	0.028	0.242
Isoniazid02	-0.573	-1.326
Rifampicin4	-1.384	-1.993
Ethambutol3	-1.338	-1.448
Meropenem3	-1.438	-0.779
Vancomycin16	-1.228	-1.353
Rv2680_day32	1.591	0.253
H37Rv_KO_MarP	0.683	-0.268
hypoxia_3wks	-0.136	0.235
hypoxia_6wks	-0.89	0.0
glycerol	-0.769	-0.813
cholesterol	-0.311	-0.205
AJ	0.072	0.249
Bibs02	-0.23	0.265
Bibs02c	1.449	-0.091
BL6	0.825	0.279
BL6a	1.465	0.076
BXD01	-0.782	0.244
BXD010	0.862	0.514
BXD011	0.391	0.682
BXD03	0.458	0.517
BXD04	0.09	0.876
BXD05	0.533	0.437
BXD06	0.238	0.504
BXD07	0.601	0.504
BXD08	0.009	0.613
BXD09	0.391	0.403
CAST	-0.195	0.484
CCcont	0.018	0.057
DS01	0.332	0.046
DS02	0.488	0.154
DS04	-0.062	0.082
DS0c	0.888	0.074
GP01	0.77	0.696
GP02	0.271	0.201
GP0c	-0.427	0.092
NOD	0.215	0.556
NZO	0.428	0.127
PWK	0.084	0.23
H37Rv_KO_CtpC	0.685	0.157
H37Rv_KO_CtpD	0.523	0.205
H37Rv_KO_Rv1272	0.534	0.607
H37Rv_KO_SugABC	-1.813	0.15
H37Rv_KO_MbtN	-0.631	0.361
Trans05	0.484	-0.062
macrophage_unactivated	-0.455	-0.044
IL1	0.543	0.3
Rapamycin	0.654	0.242
Tcell	0.218	0.091
GMCSF	0.85	0.037
IFNab	0.381	-0.281
IFNg	0.898	0.198
IFNg_GMCSF1	0.361	0.902
Rv1432_day32	0.51	0.189
Rv1565c_day32	0.24	-0.077
secA2_input	-0.302	-0.326
delta_Rv3594	-0.277	0.024
delta_Rv3717	-0.327	-0.317
delta_Rv3811	-0.694	-0.693
delta_Rv0954	0.58	0.081
PonA1	0.185	0.031
EccD1_KO	1.223	-0.181
EspI_KO	1.417	-0.274
PE35_KO	0.411	-0.613
PPE68_KO	0.125	-0.323
glycerol2	-0.835	-0.126
lignocerate	-0.432	-0.104
oleate	-0.543	0.113
phosphatidylcholine	-0.618	-0.007
acetate	-0.308	-0.567
glucAc	-0.141	-0.394
Rv0950ko	-0.265	0.528
Rv1096ko	0.229	0.528
Rv3684ko	0.531	-0.02
delta_otsA_trehalose	-0.204	0.0