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 Rv1777/cyp144:

update plot	correlation	link to info on gene
Rv1267c/embR	(cc=0.5251)	info on Rv1267c/embR
Rv1374c/-	(cc=0.5156)	info on Rv1374c/-
Rv1989c/-	(cc=0.4945)	info on Rv1989c/-
Rv1735c/-	(cc=0.4646)	info on Rv1735c/-
Rv2030c/-	(cc=0.43)	info on Rv2030c/-
Rv3395A/-	(cc=0.428)	info on Rv3395A/-
Rv0564c/gpdA1	(cc=0.4267)	info on Rv0564c/gpdA1
Rv1467c/fadE15	(cc=0.4254)	info on Rv1467c/fadE15
Rv3059/cyp136	(cc=0.4215)	info on Rv3059/cyp136
Rv2086/-	(cc=0.4194)	info on Rv2086/-

Correlation of Rv1777/cyp144 with Rv1267c/embR

Normalized LFCs for Rv1777/cyp144:
(description and provenance of datasets)

	Rv1777/cyp144	Rv1267c/embR
Fe_supp_jason_reseq	-0.68	-0.406
low_pH_jason_reseq	0.586	-0.234
NO_jason_reseq	1.113	0.184
B6_jason_reseq	-0.391	0.172
MHCII_jason_reseq	0.352	1.059
Isoniazid02	0.496	-0.367
Rifampicin4	0.677	-0.06
Ethambutol3	0.185	-0.291
Meropenem3	0.347	-0.195
Vancomycin16	0.517	-0.369
Rv2680_day32	0.444	-0.344
H37Rv_KO_MarP	0.186	0.683
hypoxia_3wks	-0.279	-0.566
hypoxia_6wks	-1.004	-0.679
glycerol	-1.083	-0.199
cholesterol	-1.633	-0.3
AJ	0.113	0.449
Bibs02	-0.607	0.045
Bibs02c	0.015	0.917
BL6	-0.763	-0.098
BL6a	-0.254	0.58
BXD01	0.313	-0.084
BXD010	-0.134	0.1
BXD011	-0.173	0.1
BXD03	-0.774	-0.725
BXD04	0.761	0.77
BXD05	-0.754	-0.453
BXD06	-0.029	-0.077
BXD07	0.058	0.365
BXD08	-0.564	-0.113
BXD09	-0.657	0.242
CAST	0.606	0.652
CCcont	-0.715	-0.221
DS01	-0.103	0.13
DS02	0.061	-0.041
DS04	0.041	0.446
DS0c	0.852	0.207
GP01	1.02	1.658
GP02	1.139	2.343
GP0c	0.737	1.044
NOD	1.01	0.812
NZO	-0.272	0.555
PWK	0.082	0.35
H37Rv_KO_CtpC	-0.387	-0.386
H37Rv_KO_CtpD	0.428	-0.272
H37Rv_KO_Rv1272	0.469	0.808
H37Rv_KO_SugABC	0.441	-0.342
H37Rv_KO_MbtN	-0.108	-0.102
Trans05	-0.359	0.54
macrophage_unactivated	0.139	0.395
IL1	0.214	0.486
Rapamycin	0.135	0.068
Tcell	0.668	0.984
GMCSF	-0.325	-0.235
IFNab	-0.995	-0.828
IFNg	-0.371	0.946
IFNg_GMCSF1	-0.864	0.694
Rv1432_day32	0.009	0.188
Rv1565c_day32	0.24	0.292
secA2_input	-0.905	-0.2
delta_Rv3594	0.223	0.792
delta_Rv3717	0.201	0.944
delta_Rv3811	0.506	0.208
delta_Rv0954	0.359	0.699
PonA1	-0.129	0.278
EccD1_KO	0.401	1.125
EspI_KO	-0.046	0.388
PE35_KO	0.397	1.03
PPE68_KO	0.528	0.518
glycerol2	0.558	0.273
lignocerate	0.666	0.581
oleate	0.376	0.33
phosphatidylcholine	0.857	0.545
acetate	0.113	0.51
glucAc	0.042	0.045
Rv0950ko	0.042	0.308
Rv1096ko	0.612	0.715
Rv3684ko	-0.619	0.475
delta_otsA_trehalose	1.04	0.858