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 Rv1796/mycP5:

update plot	correlation	link to info on gene
Rv1795/eccD5	(cc=0.9758)	info on Rv1795/eccD5
Rv1794/-	(cc=0.9361)	info on Rv1794/-
Rv1782/eccB5	(cc=0.9281)	info on Rv1782/eccB5
Rv1783/eccC5	(cc=0.9086)	info on Rv1783/eccC5
Rv1797/eccE5	(cc=0.8793)	info on Rv1797/eccE5
Rv3399/-	(cc=0.4227)	info on Rv3399/-
Rv1063c/-	(cc=0.4221)	info on Rv1063c/-
Rv2065/cobH	(cc=0.4104)	info on Rv2065/cobH
Rv1267c/embR	(cc=0.4029)	info on Rv1267c/embR
Rv1781c/malQ	(cc=0.3958)	info on Rv1781c/malQ

Correlation of Rv1796/mycP5 with Rv3399/-

Normalized LFCs for Rv1796/mycP5:
(description and provenance of datasets)

	Rv1796/mycP5	Rv3399/-
Fe_supp_jason_reseq	1.07	0.369
low_pH_jason_reseq	0.0	0.567
NO_jason_reseq	0.0	-0.228
B6_jason_reseq	0.0	-0.558
MHCII_jason_reseq	0.0	-0.108
Isoniazid02	0.0	-0.438
Rifampicin4	-0.341	-0.861
Ethambutol3	-0.153	-0.913
Meropenem3	0.701	-0.199
Vancomycin16	0.0	-0.398
Rv2680_day32	0.0	-1.693
H37Rv_KO_MarP	3.913	0.226
hypoxia_3wks	0.0	0.0
hypoxia_6wks	0.0	-0.123
glycerol	2.817	0.462
cholesterol	1.261	0.306
AJ	0.0	-0.617
Bibs02	0.0	0.322
Bibs02c	0.887	1.017
BL6	0.0	0.624
BL6a	0.198	0.24
BXD01	0.0	0.298
BXD010	0.0	0.202
BXD011	0.0	0.989
BXD03	0.0	0.084
BXD04	0.0	0.461
BXD05	0.0	0.0
BXD06	0.0	0.769
BXD07	0.0	-0.223
BXD08	0.0	-0.549
BXD09	0.0	0.756
CAST	0.0	-0.809
CCcont	0.285	-0.438
DS01	0.0	0.24
DS02	0.0	-0.578
DS04	0.0	0.041
DS0c	0.0	-0.244
GP01	4.286	1.656
GP02	3.666	2.453
GP0c	4.971	1.493
NOD	0.0	-0.724
NZO	0.0	0.315
PWK	0.0	0.381
H37Rv_KO_CtpC	0.0	1.013
H37Rv_KO_CtpD	0.0	0.944
H37Rv_KO_Rv1272	0.0	1.526
H37Rv_KO_SugABC	0.0	-1.457
H37Rv_KO_MbtN	0.0	1.24
Trans05	0.0	1.491
macrophage_unactivated	0.0	-0.265
IL1	0.0	0.807
Rapamycin	0.0	0.476
Tcell	0.0	0.424
GMCSF	0.0	0.209
IFNab	0.0	0.541
IFNg	0.0	0.347
IFNg_GMCSF1	0.0	0.638
Rv1432_day32	0.0	-0.231
Rv1565c_day32	0.0	-0.253
secA2_input	0.216	-0.036
delta_Rv3594	-0.211	0.0
delta_Rv3717	0.992	-0.238
delta_Rv3811	-0.205	-0.171
delta_Rv0954	2.103	0.242
PonA1	-0.159	-0.162
EccD1_KO	-0.454	0.829
EspI_KO	-0.394	0.177
PE35_KO	0.368	0.467
PPE68_KO	0.0	0.806
glycerol2	0.0	-0.766
lignocerate	0.0	-0.358
oleate	0.0	0.252
phosphatidylcholine	0.0	0.154
acetate	0.437	0.352
glucAc	0.0	-0.123
Rv0950ko	0.669	-0.154
Rv1096ko	0.0	0.48
Rv3684ko	-0.413	-0.226
delta_otsA_trehalose	0.133	-0.368