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 Rv3486/-

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

	Rv0506/mmpS2	Rv3486/-
Fe_supp_jason_reseq	1.096	0.379
low_pH_jason_reseq	-0.432	-1.196
NO_jason_reseq	-0.213	-0.654
B6_jason_reseq	-0.1	-0.522
MHCII_jason_reseq	0.77	0.388
Isoniazid02	0.25	-0.111
Rifampicin4	0.379	-0.428
Ethambutol3	0.116	0.708
Meropenem3	0.073	0.163
Vancomycin16	0.273	0.045
Rv2680_day32	1.231	1.086
H37Rv_KO_MarP	0.59	0.47
hypoxia_3wks	1.659	0.02
hypoxia_6wks	1.274	0.317
glycerol	0.584	-0.171
cholesterol	0.659	-0.64
AJ	-0.218	-0.143
Bibs02	0.474	-0.658
Bibs02c	1.015	0.265
BL6	-0.27	-0.247
BL6a	0.827	0.255
BXD01	0.6	-0.221
BXD010	0.949	0.016
BXD011	0.207	-0.026
BXD03	0.0	-0.063
BXD04	0.744	-0.179
BXD05	-0.275	0.516
BXD06	0.424	-0.019
BXD07	0.107	0.258
BXD08	0.279	0.333
BXD09	0.146	-0.152
CAST	0.355	-0.314
CCcont	0.348	0.042
DS01	-0.012	-0.727
DS02	0.629	0.176
DS04	0.209	0.129
DS0c	0.999	-0.506
GP01	-0.14	-0.453
GP02	0.347	-1.348
GP0c	-0.17	0.132
NOD	0.145	0.024
NZO	-0.812	-0.643
PWK	-0.323	-0.028
H37Rv_KO_CtpC	1.204	-0.275
H37Rv_KO_CtpD	0.818	1.131
H37Rv_KO_Rv1272	0.87	0.57
H37Rv_KO_SugABC	0.272	0.427
H37Rv_KO_MbtN	1.445	0.653
Trans05	0.695	0.504
macrophage_unactivated	0.723	0.107
IL1	0.018	-0.181
Rapamycin	-0.175	0.236
Tcell	0.534	-0.199
GMCSF	0.953	0.174
IFNab	0.308	0.076
IFNg	0.655	0.168
IFNg_GMCSF1	-0.16	0.255
Rv1432_day32	0.215	0.501
Rv1565c_day32	0.908	0.22
secA2_input	-0.593	0.202
delta_Rv3594	1.121	0.257
delta_Rv3717	-0.473	-0.161
delta_Rv3811	0.805	-0.635
delta_Rv0954	-0.213	-0.074
PonA1	0.297	-0.376
EccD1_KO	0.766	-0.072
EspI_KO	0.97	0.619
PE35_KO	0.508	-0.265
PPE68_KO	0.474	-0.061
glycerol2	0.198	0.622
lignocerate	0.346	0.725
oleate	0.614	0.364
phosphatidylcholine	0.522	0.599
acetate	0.342	0.196
glucAc	0.111	0.221
Rv0950ko	0.208	-0.13
Rv1096ko	-0.359	-1.324
Rv3684ko	-0.065	-0.832
delta_otsA_trehalose	0.162	0.23