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 Rv2300c/-:

update plot	correlation	link to info on gene
Rv3738c/PPE66	(cc=0.5432)	info on Rv3738c/PPE66
Rv2497c/bkdA	(cc=0.4583)	info on Rv2497c/bkdA
Rv3485c/-	(cc=0.4561)	info on Rv3485c/-
Rv0830/-	(cc=0.4523)	info on Rv0830/-
Rv1141c/echA11	(cc=0.4476)	info on Rv1141c/echA11
Rv0872c/PE_PGRS15	(cc=0.439)	info on Rv0872c/PE_PGRS15
Rv3435c/-	(cc=0.4362)	info on Rv3435c/-
Rv2345/-	(cc=0.4342)	info on Rv2345/-
Rv1153c/omt	(cc=0.43)	info on Rv1153c/omt
Rv3092c/-	(cc=0.4259)	info on Rv3092c/-

Correlation of Rv2300c/- with Rv3092c/-

Normalized LFCs for Rv2300c/-:
(description and provenance of datasets)

	Rv2300c/-	Rv3092c/-
Fe_supp_jason_reseq	-0.223	-0.603
low_pH_jason_reseq	-0.714	-0.619
NO_jason_reseq	0.071	-0.186
B6_jason_reseq	0.016	0.108
MHCII_jason_reseq	0.209	-0.022
Isoniazid02	-0.113	1.461
Rifampicin4	-0.097	-0.368
Ethambutol3	-0.022	0.653
Meropenem3	-0.4	0.298
Vancomycin16	-0.194	0.223
Rv2680_day32	-1.068	-1.456
H37Rv_KO_MarP	-0.078	-0.027
hypoxia_3wks	0.171	-0.327
hypoxia_6wks	0.177	-0.303
glycerol	-0.658	-1.181
cholesterol	-0.495	-0.622
AJ	-0.126	0.059
Bibs02	-0.099	-0.004
Bibs02c	0.391	0.767
BL6	0.237	-0.075
BL6a	0.194	0.594
BXD01	0.109	-0.069
BXD010	0.549	-0.159
BXD011	0.467	-0.574
BXD03	0.122	0.197
BXD04	0.014	0.222
BXD05	-0.453	0.01
BXD06	0.035	-0.08
BXD07	0.259	0.022
BXD08	0.491	0.496
BXD09	0.253	-0.253
CAST	0.272	0.245
CCcont	0.236	-0.166
DS01	0.062	0.055
DS02	-0.076	0.095
DS04	0.169	1.226
DS0c	0.314	0.423
GP01	0.099	0.084
GP02	0.592	0.128
GP0c	-0.056	0.311
NOD	0.234	-0.096
NZO	0.513	0.157
PWK	0.428	-0.227
H37Rv_KO_CtpC	0.364	-0.258
H37Rv_KO_CtpD	0.696	0.364
H37Rv_KO_Rv1272	1.149	0.077
H37Rv_KO_SugABC	0.374	-0.21
H37Rv_KO_MbtN	0.381	-0.128
Trans05	0.325	-0.318
macrophage_unactivated	0.139	0.657
IL1	0.332	0.647
Rapamycin	0.04	0.881
Tcell	0.029	0.779
GMCSF	0.174	0.28
IFNab	0.121	0.795
IFNg	0.484	0.81
IFNg_GMCSF1	0.531	0.126
Rv1432_day32	0.519	0.549
Rv1565c_day32	0.21	0.077
secA2_input	0.913	-0.019
delta_Rv3594	0.095	-0.805
delta_Rv3717	-0.249	-0.141
delta_Rv3811	-0.397	-0.669
delta_Rv0954	-0.649	-0.216
PonA1	-0.321	0.252
EccD1_KO	0.227	0.51
EspI_KO	0.465	0.225
PE35_KO	0.376	0.149
PPE68_KO	0.118	0.291
glycerol2	0.738	0.478
lignocerate	0.82	1.055
oleate	1.007	0.398
phosphatidylcholine	0.91	0.864
acetate	0.096	-0.105
glucAc	0.207	0.305
Rv0950ko	0.874	0.492
Rv1096ko	0.214	0.0
Rv3684ko	0.049	0.052
delta_otsA_trehalose	0.871	0.016