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 Rv0713/-

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

	Rv0506/mmpS2	Rv0713/-
Fe_supp_jason_reseq	1.096	1.217
low_pH_jason_reseq	-0.432	-0.4
NO_jason_reseq	-0.213	-0.223
B6_jason_reseq	-0.1	0.443
MHCII_jason_reseq	0.77	1.131
Isoniazid02	0.25	-1.464
Rifampicin4	0.379	0.146
Ethambutol3	0.116	-0.872
Meropenem3	0.073	-1.261
Vancomycin16	0.273	-0.204
Rv2680_day32	1.231	-0.5
H37Rv_KO_MarP	0.59	0.491
hypoxia_3wks	1.659	0.367
hypoxia_6wks	1.274	0.355
glycerol	0.584	-0.781
cholesterol	0.659	-0.668
AJ	-0.218	-0.203
Bibs02	0.474	-0.191
Bibs02c	1.015	-0.149
BL6	-0.27	-0.166
BL6a	0.827	-0.228
BXD01	0.6	0.261
BXD010	0.949	0.199
BXD011	0.207	-0.271
BXD03	0.0	-0.077
BXD04	0.744	0.179
BXD05	-0.275	0.188
BXD06	0.424	0.225
BXD07	0.107	-0.264
BXD08	0.279	0.496
BXD09	0.146	-0.211
CAST	0.355	-0.527
CCcont	0.348	0.171
DS01	-0.012	-0.494
DS02	0.629	-0.273
DS04	0.209	-0.467
DS0c	0.999	-0.405
GP01	-0.14	-0.61
GP02	0.347	-1.011
GP0c	-0.17	-1.142
NOD	0.145	-0.386
NZO	-0.812	-1.05
PWK	-0.323	0.148
H37Rv_KO_CtpC	1.204	-0.585
H37Rv_KO_CtpD	0.818	0.152
H37Rv_KO_Rv1272	0.87	-0.472
H37Rv_KO_SugABC	0.272	0.26
H37Rv_KO_MbtN	1.445	0.537
Trans05	0.695	0.346
macrophage_unactivated	0.723	0.249
IL1	0.018	-0.567
Rapamycin	-0.175	-0.832
Tcell	0.534	-0.466
GMCSF	0.953	0.066
IFNab	0.308	-0.475
IFNg	0.655	-0.615
IFNg_GMCSF1	-0.16	-0.899
Rv1432_day32	0.215	-0.72
Rv1565c_day32	0.908	-0.158
secA2_input	-0.593	-0.495
delta_Rv3594	1.121	0.081
delta_Rv3717	-0.473	-0.063
delta_Rv3811	0.805	0.171
delta_Rv0954	-0.213	-0.191
PonA1	0.297	-0.063
EccD1_KO	0.766	0.306
EspI_KO	0.97	0.533
PE35_KO	0.508	0.123
PPE68_KO	0.474	0.134
glycerol2	0.198	0.751
lignocerate	0.346	0.581
oleate	0.614	0.784
phosphatidylcholine	0.522	0.829
acetate	0.342	-0.248
glucAc	0.111	-0.525
Rv0950ko	0.208	-0.163
Rv1096ko	-0.359	-0.377
Rv3684ko	-0.065	-0.652
delta_otsA_trehalose	0.162	1.203