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 Rv3200c/-

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

	Rv0506/mmpS2	Rv3200c/-
Fe_supp_jason_reseq	1.096	2.104
low_pH_jason_reseq	-0.432	0.811
NO_jason_reseq	-0.213	-3.108
B6_jason_reseq	-0.1	-0.929
MHCII_jason_reseq	0.77	-0.818
Isoniazid02	0.25	0.627
Rifampicin4	0.379	2.226
Ethambutol3	0.116	0.123
Meropenem3	0.073	-0.144
Vancomycin16	0.273	2.069
Rv2680_day32	1.231	-1.066
H37Rv_KO_MarP	0.59	-2.822
hypoxia_3wks	1.659	0.794
hypoxia_6wks	1.274	2.998
glycerol	0.584	-0.633
cholesterol	0.659	2.534
AJ	-0.218	-0.728
Bibs02	0.474	0.703
Bibs02c	1.015	0.505
BL6	-0.27	-0.684
BL6a	0.827	0.595
BXD01	0.6	-0.478
BXD010	0.949	-0.543
BXD011	0.207	-0.05
BXD03	0.0	0.284
BXD04	0.744	-0.048
BXD05	-0.275	-0.354
BXD06	0.424	0.05
BXD07	0.107	-0.054
BXD08	0.279	-0.488
BXD09	0.146	-0.769
CAST	0.355	-0.976
CCcont	0.348	1.552
DS01	-0.012	1.665
DS02	0.629	0.717
DS04	0.209	1.903
DS0c	0.999	0.652
GP01	-0.14	0.38
GP02	0.347	-0.455
GP0c	-0.17	0.049
NOD	0.145	-1.38
NZO	-0.812	-1.691
PWK	-0.323	-0.158
H37Rv_KO_CtpC	1.204	0.75
H37Rv_KO_CtpD	0.818	0.52
H37Rv_KO_Rv1272	0.87	1.294
H37Rv_KO_SugABC	0.272	1.711
H37Rv_KO_MbtN	1.445	2.884
Trans05	0.695	0.274
macrophage_unactivated	0.723	1.812
IL1	0.018	-0.836
Rapamycin	-0.175	-0.522
Tcell	0.534	2.463
GMCSF	0.953	-0.264
IFNab	0.308	1.735
IFNg	0.655	-0.754
IFNg_GMCSF1	-0.16	-1.141
Rv1432_day32	0.215	-2.154
Rv1565c_day32	0.908	2.159
secA2_input	-0.593	-3.604
delta_Rv3594	1.121	2.236
delta_Rv3717	-0.473	2.162
delta_Rv3811	0.805	2.229
delta_Rv0954	-0.213	0.336
PonA1	0.297	0.0
EccD1_KO	0.766	-1.161
EspI_KO	0.97	-0.031
PE35_KO	0.508	0.825
PPE68_KO	0.474	0.176
glycerol2	0.198	0.13
lignocerate	0.346	-0.122
oleate	0.614	0.784
phosphatidylcholine	0.522	-0.289
acetate	0.342	0.155
glucAc	0.111	-0.213
Rv0950ko	0.208	-0.507
Rv1096ko	-0.359	1.936
Rv3684ko	-0.065	-0.242
delta_otsA_trehalose	0.162	-0.346