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 Rv0506/mmpS2:

update plot	correlation	link to info on gene
Rv1677/dsbF	(cc=0.4474)	info on Rv1677/dsbF
Rv2436/rbsK	(cc=0.4288)	info on Rv2436/rbsK
Rv1810/-	(cc=0.4274)	info on Rv1810/-
Rv1507A/-	(cc=0.4166)	info on Rv1507A/-
Rv1521/fadD25	(cc=0.3756)	info on Rv1521/fadD25
Rv0307c/-	(cc=0.3722)	info on Rv0307c/-
Rv0713/-	(cc=0.3689)	info on Rv0713/-
Rv3200c/-	(cc=0.3658)	info on Rv3200c/-
Rv3486/-	(cc=0.3612)	info on Rv3486/-
Rv2957/-	(cc=0.3594)	info on Rv2957/-

Correlation of Rv0506/mmpS2 with Rv1677/dsbF

Normalized LFCs for Rv0506/mmpS2:
(description and provenance of datasets)

	Rv0506/mmpS2	Rv1677/dsbF
Fe_supp_jason_reseq	1.096	0.188
low_pH_jason_reseq	-0.432	0.381
NO_jason_reseq	-0.213	0.0
B6_jason_reseq	-0.1	-0.743
MHCII_jason_reseq	0.77	-0.655
Isoniazid02	0.25	-1.352
Rifampicin4	0.379	0.303
Ethambutol3	0.116	-1.345
Meropenem3	0.073	-1.701
Vancomycin16	0.273	-0.239
Rv2680_day32	1.231	3.254
H37Rv_KO_MarP	0.59	0.313
hypoxia_3wks	1.659	1.344
hypoxia_6wks	1.274	0.301
glycerol	0.584	0.471
cholesterol	0.659	1.022
AJ	-0.218	-0.274
Bibs02	0.474	-0.294
Bibs02c	1.015	-0.079
BL6	-0.27	-0.906
BL6a	0.827	-1.291
BXD01	0.6	-0.944
BXD010	0.949	-1.134
BXD011	0.207	0.824
BXD03	0.0	-0.79
BXD04	0.744	-0.434
BXD05	-0.275	0.0
BXD06	0.424	-0.87
BXD07	0.107	0.323
BXD08	0.279	0.35
BXD09	0.146	0.102
CAST	0.355	-0.809
CCcont	0.348	-1.198
DS01	-0.012	-0.089
DS02	0.629	1.843
DS04	0.209	0.394
DS0c	0.999	1.765
GP01	-0.14	1.303
GP02	0.347	0.45
GP0c	-0.17	-0.049
NOD	0.145	-1.172
NZO	-0.812	-0.808
PWK	-0.323	-0.59
H37Rv_KO_CtpC	1.204	0.916
H37Rv_KO_CtpD	0.818	2.149
H37Rv_KO_Rv1272	0.87	1.172
H37Rv_KO_SugABC	0.272	0.42
H37Rv_KO_MbtN	1.445	2.278
Trans05	0.695	0.707
macrophage_unactivated	0.723	-0.398
IL1	0.018	0.0
Rapamycin	-0.175	-1.034
Tcell	0.534	-0.411
GMCSF	0.953	0.85
IFNab	0.308	-0.381
IFNg	0.655	0.307
IFNg_GMCSF1	-0.16	0.0
Rv1432_day32	0.215	0.0
Rv1565c_day32	0.908	-0.161
secA2_input	-0.593	-1.675
delta_Rv3594	1.121	-0.125
delta_Rv3717	-0.473	0.098
delta_Rv3811	0.805	-0.59
delta_Rv0954	-0.213	-0.606
PonA1	0.297	-0.34
EccD1_KO	0.766	-0.802
EspI_KO	0.97	0.973
PE35_KO	0.508	0.443
PPE68_KO	0.474	0.394
glycerol2	0.198	0.0
lignocerate	0.346	0.168
oleate	0.614	0.0
phosphatidylcholine	0.522	0.0
acetate	0.342	0.0
glucAc	0.111	0.0
Rv0950ko	0.208	-1.203
Rv1096ko	-0.359	0.148
Rv3684ko	-0.065	-1.307
delta_otsA_trehalose	0.162	0.629