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 Rv0876c/-:

update plot	correlation	link to info on gene
Rv0016c/pbpA	(cc=0.5591)	info on Rv0016c/pbpA
Rv1821/secA2	(cc=0.5382)	info on Rv1821/secA2
Rv3207c/-	(cc=0.5306)	info on Rv3207c/-
Rv1565c/-	(cc=0.5271)	info on Rv1565c/-
Rv0867c/rpfA	(cc=0.5245)	info on Rv0867c/rpfA
Rv2176/pknL	(cc=0.5121)	info on Rv2176/pknL
Rv0050/ponA1	(cc=0.512)	info on Rv0050/ponA1
Rv1411c/lprG	(cc=0.51)	info on Rv1411c/lprG
Rv2922c/smc	(cc=0.5094)	info on Rv2922c/smc
Rv0260c/-	(cc=0.5065)	info on Rv0260c/-

Correlation of Rv0876c/- with Rv0867c/rpfA

Normalized LFCs for Rv0876c/-:
(description and provenance of datasets)

	Rv0876c/-	Rv0867c/rpfA
Fe_supp_jason_reseq	1.877	-0.357
low_pH_jason_reseq	-0.793	-2.284
NO_jason_reseq	0.15	-0.152
B6_jason_reseq	-0.617	-0.042
MHCII_jason_reseq	-0.922	-0.633
Isoniazid02	-0.681	-0.343
Rifampicin4	-0.872	-0.387
Ethambutol3	-2.067	-0.137
Meropenem3	0.779	0.026
Vancomycin16	-1.005	0.435
Rv2680_day32	-0.917	0.346
H37Rv_KO_MarP	-3.914	-2.042
hypoxia_3wks	0.295	0.048
hypoxia_6wks	-0.614	0.858
glycerol	2.24	-0.072
cholesterol	1.282	0.5
AJ	-0.388	0.106
Bibs02	0.799	1.126
Bibs02c	-0.887	0.15
BL6	0.546	1.06
BL6a	-0.077	0.241
BXD01	0.274	0.332
BXD010	0.227	0.81
BXD011	0.68	0.344
BXD03	-0.109	0.349
BXD04	0.508	0.903
BXD05	0.148	1.059
BXD06	0.401	0.59
BXD07	0.375	0.707
BXD08	0.321	0.391
BXD09	0.75	0.581
CAST	-1.113	-0.027
CCcont	1.574	0.606
DS01	0.0	0.513
DS02	0.239	0.715
DS04	-0.325	1.341
DS0c	1.848	0.663
GP01	-0.363	0.546
GP02	-0.635	-0.172
GP0c	-1.22	0.3
NOD	-0.825	-0.584
NZO	-0.845	-0.087
PWK	-0.158	0.112
H37Rv_KO_CtpC	1.569	0.453
H37Rv_KO_CtpD	0.306	1.161
H37Rv_KO_Rv1272	0.651	0.275
H37Rv_KO_SugABC	1.071	1.459
H37Rv_KO_MbtN	1.17	1.305
Trans05	-0.344	0.969
macrophage_unactivated	0.511	0.303
IL1	0.572	0.19
Rapamycin	0.497	-0.071
Tcell	0.0	0.182
GMCSF	0.887	0.52
IFNab	1.097	1.288
IFNg	0.898	1.221
IFNg_GMCSF1	0.314	0.327
Rv1432_day32	0.213	1.159
Rv1565c_day32	-0.199	-0.929
secA2_input	-0.2	-0.889
delta_Rv3594	-0.26	0.32
delta_Rv3717	-1.067	0.136
delta_Rv3811	0.397	-0.009
delta_Rv0954	-2.965	-0.512
PonA1	-1.924	-0.599
EccD1_KO	-0.072	0.421
EspI_KO	0.388	0.87
PE35_KO	-0.403	0.499
PPE68_KO	0.138	0.438
glycerol2	-0.213	0.74
lignocerate	0.044	0.415
oleate	-0.804	0.414
phosphatidylcholine	-0.27	0.22
acetate	0.116	0.919
glucAc	0.0	0.345
Rv0950ko	0.163	-1.375
Rv1096ko	-1.601	-1.233
Rv3684ko	-0.704	-1.094
delta_otsA_trehalose	-1.336	-0.394