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 Rv3138/pflA:

update plot	correlation	link to info on gene
Rv2998/-	(cc=0.5123)	info on Rv2998/-
Rv0905/echA6	(cc=0.4915)	info on Rv0905/echA6
Rv0397A/-	(cc=0.4896)	info on Rv0397A/-
Rv0365c/-	(cc=0.4881)	info on Rv0365c/-
Rv1525/wbbL2	(cc=0.4791)	info on Rv1525/wbbL2
Rv3126c/-	(cc=0.4715)	info on Rv3126c/-
Rv3529c/-	(cc=0.4674)	info on Rv3529c/-
Rv0605/-	(cc=0.4519)	info on Rv0605/-
Rv0845/-	(cc=0.4493)	info on Rv0845/-
Rv2634c/PE_PGRS46	(cc=0.4489)	info on Rv2634c/PE_PGRS46

Correlation of Rv3138/pflA with Rv0605/-

Normalized LFCs for Rv3138/pflA:
(description and provenance of datasets)

	Rv3138/pflA	Rv0605/-
Fe_supp_jason_reseq	-0.298	-0.995
low_pH_jason_reseq	0.089	-0.028
NO_jason_reseq	-0.06	-0.215
B6_jason_reseq	-0.658	-0.115
MHCII_jason_reseq	-0.094	0.297
Isoniazid02	0.153	-0.274
Rifampicin4	-0.173	0.195
Ethambutol3	0.358	-0.371
Meropenem3	-0.818	-0.589
Vancomycin16	-0.485	-0.119
Rv2680_day32	-0.696	-0.777
H37Rv_KO_MarP	0.346	0.391
hypoxia_3wks	-0.032	-0.159
hypoxia_6wks	-0.081	-0.478
glycerol	-0.575	0.127
cholesterol	0.068	0.526
AJ	0.425	-0.207
Bibs02	0.527	-0.038
Bibs02c	0.582	0.708
BL6	0.17	0.372
BL6a	0.732	0.194
BXD01	0.703	0.018
BXD010	0.479	-0.298
BXD011	2.15	1.443
BXD03	0.39	0.08
BXD04	0.702	-0.205
BXD05	0.833	0.244
BXD06	0.587	0.109
BXD07	0.831	0.549
BXD08	0.054	0.241
BXD09	0.746	0.128
CAST	-0.132	-0.319
CCcont	0.454	0.223
DS01	0.0	-0.099
DS02	0.269	0.117
DS04	-0.571	-0.115
DS0c	0.36	0.165
GP01	0.456	0.185
GP02	0.077	0.345
GP0c	-0.103	0.099
NOD	-0.212	0.22
NZO	0.678	0.152
PWK	0.772	-0.041
H37Rv_KO_CtpC	-0.241	-0.399
H37Rv_KO_CtpD	-0.198	1.48
H37Rv_KO_Rv1272	0.362	-0.807
H37Rv_KO_SugABC	-0.155	0.127
H37Rv_KO_MbtN	-0.113	-0.069
Trans05	0.469	-0.126
macrophage_unactivated	1.275	0.306
IL1	0.736	1.323
Rapamycin	0.292	1.335
Tcell	0.489	0.316
GMCSF	0.57	0.919
IFNab	0.133	0.493
IFNg	0.454	0.583
IFNg_GMCSF1	0.877	0.786
Rv1432_day32	0.159	0.348
Rv1565c_day32	0.224	0.022
secA2_input	-0.366	0.011
delta_Rv3594	-0.878	-0.503
delta_Rv3717	-0.943	0.186
delta_Rv3811	-0.665	-0.778
delta_Rv0954	0.12	-0.32
PonA1	-0.459	-0.83
EccD1_KO	0.98	0.714
EspI_KO	0.268	0.553
PE35_KO	0.274	1.275
PPE68_KO	0.358	0.733
glycerol2	0.156	0.502
lignocerate	0.379	1.359
oleate	0.021	-0.024
phosphatidylcholine	0.328	0.926
acetate	-0.286	0.638
glucAc	-0.017	1.051
Rv0950ko	0.28	0.847
Rv1096ko	0.13	1.056
Rv3684ko	0.616	1.205
delta_otsA_trehalose	0.181	-0.234