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 Rv2436/rbsK

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

	Rv0506/mmpS2	Rv2436/rbsK
Fe_supp_jason_reseq	1.096	0.458
low_pH_jason_reseq	-0.432	0.636
NO_jason_reseq	-0.213	0.344
B6_jason_reseq	-0.1	-0.727
MHCII_jason_reseq	0.77	-1.484
Isoniazid02	0.25	-0.838
Rifampicin4	0.379	0.72
Ethambutol3	0.116	-1.026
Meropenem3	0.073	-0.564
Vancomycin16	0.273	-0.745
Rv2680_day32	1.231	1.263
H37Rv_KO_MarP	0.59	0.095
hypoxia_3wks	1.659	0.0
hypoxia_6wks	1.274	-1.723
glycerol	0.584	-0.394
cholesterol	0.659	0.897
AJ	-0.218	0.425
Bibs02	0.474	0.868
Bibs02c	1.015	1.716
BL6	-0.27	-0.179
BL6a	0.827	0.672
BXD01	0.6	0.523
BXD010	0.949	-0.15
BXD011	0.207	0.028
BXD03	0.0	0.321
BXD04	0.744	-0.028
BXD05	-0.275	0.247
BXD06	0.424	0.193
BXD07	0.107	0.823
BXD08	0.279	0.756
BXD09	0.146	-0.71
CAST	0.355	-0.105
CCcont	0.348	1.24
DS01	-0.012	0.296
DS02	0.629	0.807
DS04	0.209	0.319
DS0c	0.999	1.948
GP01	-0.14	-1.498
GP02	0.347	0.621
GP0c	-0.17	-0.971
NOD	0.145	0.0
NZO	-0.812	-0.936
PWK	-0.323	-0.604
H37Rv_KO_CtpC	1.204	1.727
H37Rv_KO_CtpD	0.818	1.357
H37Rv_KO_Rv1272	0.87	1.778
H37Rv_KO_SugABC	0.272	0.484
H37Rv_KO_MbtN	1.445	0.366
Trans05	0.695	2.226
macrophage_unactivated	0.723	1.521
IL1	0.018	1.13
Rapamycin	-0.175	0.322
Tcell	0.534	0.736
GMCSF	0.953	2.141
IFNab	0.308	0.955
IFNg	0.655	0.142
IFNg_GMCSF1	-0.16	0.562
Rv1432_day32	0.215	0.0
Rv1565c_day32	0.908	0.294
secA2_input	-0.593	-1.924
delta_Rv3594	1.121	0.525
delta_Rv3717	-0.473	-0.391
delta_Rv3811	0.805	0.433
delta_Rv0954	-0.213	-1.914
PonA1	0.297	-0.627
EccD1_KO	0.766	1.388
EspI_KO	0.97	1.614
PE35_KO	0.508	1.873
PPE68_KO	0.474	1.747
glycerol2	0.198	0.96
lignocerate	0.346	0.856
oleate	0.614	0.0
phosphatidylcholine	0.522	0.696
acetate	0.342	1.139
glucAc	0.111	0.762
Rv0950ko	0.208	-0.736
Rv1096ko	-0.359	-0.875
Rv3684ko	-0.065	-0.187
delta_otsA_trehalose	0.162	-2.417