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 Rv1782/eccB5

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

	Rv1796/mycP5	Rv1782/eccB5
Fe_supp_jason_reseq	1.07	0.0
low_pH_jason_reseq	0.0	0.0
NO_jason_reseq	0.0	0.0
B6_jason_reseq	0.0	0.0
MHCII_jason_reseq	0.0	0.0
Isoniazid02	0.0	0.0
Rifampicin4	-0.341	0.0
Ethambutol3	-0.153	0.0
Meropenem3	0.701	0.0
Vancomycin16	0.0	0.0
Rv2680_day32	0.0	0.0
H37Rv_KO_MarP	3.913	5.735
hypoxia_3wks	0.0	0.0
hypoxia_6wks	0.0	0.0
glycerol	2.817	2.703
cholesterol	1.261	1.712
AJ	0.0	0.0
Bibs02	0.0	0.0
Bibs02c	0.887	0.209
BL6	0.0	0.0
BL6a	0.198	0.0
BXD01	0.0	0.0
BXD010	0.0	0.0
BXD011	0.0	0.0
BXD03	0.0	0.0
BXD04	0.0	0.0
BXD05	0.0	0.0
BXD06	0.0	0.0
BXD07	0.0	0.0
BXD08	0.0	0.0
BXD09	0.0	0.0
CAST	0.0	0.0
CCcont	0.285	0.149
DS01	0.0	0.0
DS02	0.0	0.0
DS04	0.0	0.0
DS0c	0.0	0.0
GP01	4.286	3.583
GP02	3.666	2.307
GP0c	4.971	3.958
NOD	0.0	0.0
NZO	0.0	0.0
PWK	0.0	0.0
H37Rv_KO_CtpC	0.0	0.0
H37Rv_KO_CtpD	0.0	0.0
H37Rv_KO_Rv1272	0.0	0.0
H37Rv_KO_SugABC	0.0	0.0
H37Rv_KO_MbtN	0.0	0.0
Trans05	0.0	0.0
macrophage_unactivated	0.0	0.0
IL1	0.0	0.0
Rapamycin	0.0	0.0
Tcell	0.0	0.0
GMCSF	0.0	0.0
IFNab	0.0	0.0
IFNg	0.0	0.0
IFNg_GMCSF1	0.0	0.0
Rv1432_day32	0.0	0.0
Rv1565c_day32	0.0	0.0
secA2_input	0.216	0.593
delta_Rv3594	-0.211	0.0
delta_Rv3717	0.992	0.331
delta_Rv3811	-0.205	0.0
delta_Rv0954	2.103	1.196
PonA1	-0.159	0.0
EccD1_KO	-0.454	0.0
EspI_KO	-0.394	0.0
PE35_KO	0.368	0.403
PPE68_KO	0.0	0.0
glycerol2	0.0	0.0
lignocerate	0.0	0.0
oleate	0.0	0.0
phosphatidylcholine	0.0	0.0
acetate	0.437	0.0
glucAc	0.0	0.0
Rv0950ko	0.669	0.416
Rv1096ko	0.0	0.0
Rv3684ko	-0.413	0.0
delta_otsA_trehalose	0.133	0.0