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 Rv0481c/-:

update plot	correlation	link to info on gene
Rv3367/PE_PGRS51	(cc=0.6395)	info on Rv3367/PE_PGRS51
Rv0359/-	(cc=0.5913)	info on Rv0359/-
Rv1843c/guaB1	(cc=0.589)	info on Rv1843c/guaB1
Rv3401/-	(cc=0.5851)	info on Rv3401/-
Rv0435c/-	(cc=0.582)	info on Rv0435c/-
Rv3471c/-	(cc=0.5721)	info on Rv3471c/-
Rv0648/-	(cc=0.5597)	info on Rv0648/-
Rv2490c/PE_PGRS43	(cc=0.5592)	info on Rv2490c/PE_PGRS43
Rv0080/-	(cc=0.5545)	info on Rv0080/-
Rv0203/-	(cc=0.5542)	info on Rv0203/-

Correlation of Rv0481c/- with Rv0648/-

Normalized LFCs for Rv0481c/-:
(description and provenance of datasets)

	Rv0481c/-	Rv0648/-
Fe_supp_jason_reseq	-0.313	-0.423
low_pH_jason_reseq	-0.597	-0.159
NO_jason_reseq	0.158	-0.06
B6_jason_reseq	1.168	0.75
MHCII_jason_reseq	1.121	0.848
Isoniazid02	0.792	0.311
Rifampicin4	0.0	0.485
Ethambutol3	0.558	0.174
Meropenem3	0.182	0.625
Vancomycin16	-0.239	-0.077
Rv2680_day32	-0.113	0.089
H37Rv_KO_MarP	0.677	0.251
hypoxia_3wks	-0.259	0.124
hypoxia_6wks	-0.338	0.127
glycerol	1.186	1.027
cholesterol	0.775	0.486
AJ	0.538	0.624
Bibs02	0.411	0.148
Bibs02c	0.415	0.374
BL6	-1.194	0.278
BL6a	-0.531	-0.053
BXD01	-1.312	-0.387
BXD010	-1.31	-0.353
BXD011	-0.663	-0.149
BXD03	-1.036	-0.036
BXD04	-0.591	-0.124
BXD05	-1.108	0.102
BXD06	-0.875	-0.164
BXD07	-0.931	-0.154
BXD08	-0.971	0.055
BXD09	-1.291	-0.341
CAST	0.672	0.454
CCcont	-1.173	-0.201
DS01	0.756	0.756
DS02	0.696	0.548
DS04	0.517	1.15
DS0c	0.006	0.492
GP01	-0.041	0.365
GP02	-0.177	0.819
GP0c	-0.77	0.238
NOD	0.635	0.5
NZO	1.124	0.426
PWK	0.404	0.253
H37Rv_KO_CtpC	-1.256	-0.331
H37Rv_KO_CtpD	0.874	0.762
H37Rv_KO_Rv1272	0.037	-0.371
H37Rv_KO_SugABC	0.618	0.753
H37Rv_KO_MbtN	-0.133	-0.022
Trans05	-0.31	0.034
macrophage_unactivated	-0.742	-0.603
IL1	0.264	0.314
Rapamycin	-0.875	-0.193
Tcell	-0.701	-0.622
GMCSF	0.57	0.211
IFNab	-0.535	0.042
IFNg	-0.957	-0.305
IFNg_GMCSF1	0.33	0.022
Rv1432_day32	2.15	-0.242
Rv1565c_day32	-0.768	0.27
secA2_input	0.258	0.969
delta_Rv3594	0.288	0.754
delta_Rv3717	-0.427	0.673
delta_Rv3811	0.199	0.344
delta_Rv0954	0.236	0.098
PonA1	0.342	0.188
EccD1_KO	-0.135	0.437
EspI_KO	-0.183	-0.094
PE35_KO	-1.438	-0.324
PPE68_KO	-1.267	-0.47
glycerol2	-1.03	0.154
lignocerate	-0.598	0.639
oleate	-1.438	0.237
phosphatidylcholine	-1.179	0.282
acetate	0.09	0.387
glucAc	0.056	0.468
Rv0950ko	0.492	0.386
Rv1096ko	0.293	1.276
Rv3684ko	0.956	0.108
delta_otsA_trehalose	-0.716	-0.912