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 Rv2957/-

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

	Rv0506/mmpS2	Rv2957/-
Fe_supp_jason_reseq	1.096	0.507
low_pH_jason_reseq	-0.432	-0.46
NO_jason_reseq	-0.213	-0.018
B6_jason_reseq	-0.1	0.052
MHCII_jason_reseq	0.77	0.319
Isoniazid02	0.25	-0.784
Rifampicin4	0.379	0.417
Ethambutol3	0.116	0.316
Meropenem3	0.073	-0.769
Vancomycin16	0.273	-0.17
Rv2680_day32	1.231	0.675
H37Rv_KO_MarP	0.59	0.492
hypoxia_3wks	1.659	-0.12
hypoxia_6wks	1.274	-0.236
glycerol	0.584	-0.018
cholesterol	0.659	-0.17
AJ	-0.218	0.171
Bibs02	0.474	-0.04
Bibs02c	1.015	0.399
BL6	-0.27	0.256
BL6a	0.827	0.131
BXD01	0.6	0.434
BXD010	0.949	0.519
BXD011	0.207	0.322
BXD03	0.0	0.536
BXD04	0.744	0.994
BXD05	-0.275	0.11
BXD06	0.424	0.465
BXD07	0.107	0.422
BXD08	0.279	0.268
BXD09	0.146	0.49
CAST	0.355	0.347
CCcont	0.348	0.191
DS01	-0.012	-0.123
DS02	0.629	0.221
DS04	0.209	-0.228
DS0c	0.999	0.358
GP01	-0.14	0.782
GP02	0.347	0.576
GP0c	-0.17	0.039
NOD	0.145	0.692
NZO	-0.812	-0.402
PWK	-0.323	0.395
H37Rv_KO_CtpC	1.204	0.936
H37Rv_KO_CtpD	0.818	0.909
H37Rv_KO_Rv1272	0.87	1.143
H37Rv_KO_SugABC	0.272	0.842
H37Rv_KO_MbtN	1.445	0.76
Trans05	0.695	1.468
macrophage_unactivated	0.723	0.615
IL1	0.018	-0.329
Rapamycin	-0.175	-0.307
Tcell	0.534	-0.476
GMCSF	0.953	-0.869
IFNab	0.308	-0.115
IFNg	0.655	0.139
IFNg_GMCSF1	-0.16	-0.478
Rv1432_day32	0.215	0.01
Rv1565c_day32	0.908	0.0
secA2_input	-0.593	0.114
delta_Rv3594	1.121	0.061
delta_Rv3717	-0.473	-0.609
delta_Rv3811	0.805	0.0
delta_Rv0954	-0.213	-0.561
PonA1	0.297	-0.38
EccD1_KO	0.766	0.51
EspI_KO	0.97	0.853
PE35_KO	0.508	1.103
PPE68_KO	0.474	0.745
glycerol2	0.198	0.303
lignocerate	0.346	0.247
oleate	0.614	0.251
phosphatidylcholine	0.522	0.356
acetate	0.342	-0.318
glucAc	0.111	-0.209
Rv0950ko	0.208	0.666
Rv1096ko	-0.359	-0.344
Rv3684ko	-0.065	0.131
delta_otsA_trehalose	0.162	-0.462