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 Rv1507A/-

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

	Rv0506/mmpS2	Rv1507A/-
Fe_supp_jason_reseq	1.096	1.042
low_pH_jason_reseq	-0.432	0.049
NO_jason_reseq	-0.213	-1.352
B6_jason_reseq	-0.1	-0.032
MHCII_jason_reseq	0.77	0.553
Isoniazid02	0.25	-1.32
Rifampicin4	0.379	0.374
Ethambutol3	0.116	-0.824
Meropenem3	0.073	-0.029
Vancomycin16	0.273	-0.297
Rv2680_day32	1.231	2.098
H37Rv_KO_MarP	0.59	-0.755
hypoxia_3wks	1.659	1.567
hypoxia_6wks	1.274	1.265
glycerol	0.584	0.31
cholesterol	0.659	0.835
AJ	-0.218	0.356
Bibs02	0.474	0.281
Bibs02c	1.015	0.6
BL6	-0.27	1.098
BL6a	0.827	1.142
BXD01	0.6	1.204
BXD010	0.949	1.335
BXD011	0.207	0.888
BXD03	0.0	0.961
BXD04	0.744	1.114
BXD05	-0.275	1.213
BXD06	0.424	1.887
BXD07	0.107	1.28
BXD08	0.279	0.702
BXD09	0.146	1.465
CAST	0.355	0.756
CCcont	0.348	1.041
DS01	-0.012	-0.065
DS02	0.629	0.531
DS04	0.209	0.675
DS0c	0.999	0.622
GP01	-0.14	0.053
GP02	0.347	2.227
GP0c	-0.17	1.172
NOD	0.145	-0.718
NZO	-0.812	0.733
PWK	-0.323	0.156
H37Rv_KO_CtpC	1.204	2.441
H37Rv_KO_CtpD	0.818	1.887
H37Rv_KO_Rv1272	0.87	0.375
H37Rv_KO_SugABC	0.272	0.744
H37Rv_KO_MbtN	1.445	1.145
Trans05	0.695	-0.193
macrophage_unactivated	0.723	1.846
IL1	0.018	0.469
Rapamycin	-0.175	0.485
Tcell	0.534	1.026
GMCSF	0.953	1.413
IFNab	0.308	0.163
IFNg	0.655	0.099
IFNg_GMCSF1	-0.16	1.125
Rv1432_day32	0.215	0.823
Rv1565c_day32	0.908	0.614
secA2_input	-0.593	-0.665
delta_Rv3594	1.121	0.713
delta_Rv3717	-0.473	0.457
delta_Rv3811	0.805	0.97
delta_Rv0954	-0.213	0.087
PonA1	0.297	0.675
EccD1_KO	0.766	0.641
EspI_KO	0.97	0.858
PE35_KO	0.508	-0.732
PPE68_KO	0.474	-0.883
glycerol2	0.198	-0.206
lignocerate	0.346	-0.309
oleate	0.614	-0.136
phosphatidylcholine	0.522	-0.134
acetate	0.342	-0.58
glucAc	0.111	-0.381
Rv0950ko	0.208	-0.25
Rv1096ko	-0.359	-1.502
Rv3684ko	-0.065	-0.871
delta_otsA_trehalose	0.162	0.497