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 Rv1262c/-:

update plot	correlation	link to info on gene
Rv0347/-	(cc=0.4835)	info on Rv0347/-
Rv0493c/-	(cc=0.4744)	info on Rv0493c/-
Rv0077c/-	(cc=0.4677)	info on Rv0077c/-
Rv1718/-	(cc=0.4589)	info on Rv1718/-
Rv0592/mce2D	(cc=0.4415)	info on Rv0592/mce2D
Rv2466c/-	(cc=0.4412)	info on Rv2466c/-
Rv0664/vapB8	(cc=0.4353)	info on Rv0664/vapB8
Rv0586/mce2R	(cc=0.4288)	info on Rv0586/mce2R
Rv0372c/-	(cc=0.425)	info on Rv0372c/-
Rv1403c/-	(cc=0.4137)	info on Rv1403c/-

Correlation of Rv1262c/- with Rv1718/-

Normalized LFCs for Rv1262c/-:
(description and provenance of datasets)

	Rv1262c/-	Rv1718/-
Fe_supp_jason_reseq	0.391	0.308
low_pH_jason_reseq	-1.345	-0.263
NO_jason_reseq	-0.244	0.441
B6_jason_reseq	1.11	1.117
MHCII_jason_reseq	1.753	0.368
Isoniazid02	-0.162	0.017
Rifampicin4	-0.428	-0.133
Ethambutol3	-0.457	-0.338
Meropenem3	0.062	-0.167
Vancomycin16	-0.204	-0.196
Rv2680_day32	-3.429	-1.001
H37Rv_KO_MarP	-0.967	-0.048
hypoxia_3wks	0.0	-1.105
hypoxia_6wks	0.683	-0.374
glycerol	0.55	0.528
cholesterol	0.381	0.943
AJ	0.14	-0.264
Bibs02	0.362	1.484
Bibs02c	0.843	0.411
BL6	-0.397	-1.198
BL6a	0.155	-0.349
BXD01	-0.72	-1.54
BXD010	-1.471	0.777
BXD011	-0.224	-1.002
BXD03	-0.678	-1.295
BXD04	-0.403	-0.491
BXD05	0.678	-1.649
BXD06	-0.505	-0.683
BXD07	-0.6	-0.739
BXD08	-0.346	-0.835
BXD09	-0.045	-0.688
CAST	0.432	1.111
CCcont	-1.218	-0.466
DS01	0.643	0.941
DS02	0.419	1.095
DS04	0.207	0.673
DS0c	1.802	1.259
GP01	1.146	0.497
GP02	-0.292	0.486
GP0c	0.348	-0.801
NOD	-1.44	-0.543
NZO	1.195	0.663
PWK	-0.607	-0.361
H37Rv_KO_CtpC	-1.414	-0.067
H37Rv_KO_CtpD	0.997	-0.384
H37Rv_KO_Rv1272	-1.619	-0.415
H37Rv_KO_SugABC	-2.256	-0.273
H37Rv_KO_MbtN	-1.753	-1.666
Trans05	-0.033	0.807
macrophage_unactivated	-0.663	-0.761
IL1	0.237	0.071
Rapamycin	0.157	-0.436
Tcell	-0.349	-1.447
GMCSF	-0.137	-0.269
IFNab	1.811	-0.151
IFNg	0.083	-0.762
IFNg_GMCSF1	-0.132	-0.848
Rv1432_day32	0.398	-0.185
Rv1565c_day32	0.218	-0.287
secA2_input	-0.817	-1.11
delta_Rv3594	-0.2	0.211
delta_Rv3717	-0.184	-0.473
delta_Rv3811	0.04	-0.269
delta_Rv0954	-1.828	-1.105
PonA1	-0.151	-1.477
EccD1_KO	-0.77	0.289
EspI_KO	0.77	1.802
PE35_KO	-0.201	0.916
PPE68_KO	-1.459	0.765
glycerol2	-0.904	0.534
lignocerate	0.699	1.818
oleate	-3.713	-2.789
phosphatidylcholine	-0.727	0.985
acetate	-0.46	2.095
glucAc	0.716	1.951
Rv0950ko	1.324	-0.232
Rv1096ko	1.876	0.853
Rv3684ko	1.618	0.174
delta_otsA_trehalose	1.906	0.363