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 Rv1551/plsB1:

update plot	correlation	link to info on gene
Rv1504c/-	(cc=0.6764)	info on Rv1504c/-
Rv1059/-	(cc=0.6755)	info on Rv1059/-
Rv2735c/-	(cc=0.6518)	info on Rv2735c/-
Rv0844c/narL	(cc=0.6337)	info on Rv0844c/narL
Rv1526c/-	(cc=0.6325)	info on Rv1526c/-
Rv2430c/PPE41	(cc=0.627)	info on Rv2430c/PPE41
Rv1521/fadD25	(cc=0.6174)	info on Rv1521/fadD25
Rv1548c/PPE21	(cc=0.6165)	info on Rv1548c/PPE21
Rv1664/pks9	(cc=0.6126)	info on Rv1664/pks9
Rv1891/-	(cc=0.6119)	info on Rv1891/-

Correlation of Rv1551/plsB1 with Rv1891/-

Normalized LFCs for Rv1551/plsB1:
(description and provenance of datasets)

	Rv1551/plsB1	Rv1891/-
Fe_supp_jason_reseq	0.923	0.152
low_pH_jason_reseq	-0.266	0.182
NO_jason_reseq	-0.079	-0.58
B6_jason_reseq	-1.362	-1.736
MHCII_jason_reseq	-0.572	-2.1
Isoniazid02	-0.127	-0.856
Rifampicin4	-0.799	-0.436
Ethambutol3	-0.186	-1.052
Meropenem3	0.818	-0.55
Vancomycin16	-0.164	0.013
Rv2680_day32	-0.362	0.038
H37Rv_KO_MarP	-0.041	0.416
hypoxia_3wks	0.467	-0.072
hypoxia_6wks	0.501	-1.194
glycerol	0.0	0.148
cholesterol	0.54	-0.331
AJ	0.471	1.151
Bibs02	-0.216	-2.375
Bibs02c	0.077	-0.534
BL6	1.452	0.932
BL6a	1.027	1.036
BXD01	0.776	1.005
BXD010	0.664	0.766
BXD011	1.181	0.785
BXD03	0.654	1.371
BXD04	1.037	-0.082
BXD05	0.698	0.39
BXD06	0.992	0.93
BXD07	1.126	1.317
BXD08	0.874	1.423
BXD09	1.168	1.202
CAST	-0.043	0.389
CCcont	0.858	1.191
DS01	0.368	-0.736
DS02	0.474	0.326
DS04	0.846	0.103
DS0c	0.662	-0.553
GP01	1.403	0.477
GP02	2.109	1.328
GP0c	1.501	1.587
NOD	-0.085	0.208
NZO	-0.114	1.017
PWK	-0.037	0.0
H37Rv_KO_CtpC	1.161	1.865
H37Rv_KO_CtpD	0.714	0.924
H37Rv_KO_Rv1272	1.832	0.869
H37Rv_KO_SugABC	1.585	0.657
H37Rv_KO_MbtN	1.287	1.416
Trans05	1.442	1.462
macrophage_unactivated	0.29	0.615
IL1	0.602	-0.394
Rapamycin	1.169	0.246
Tcell	0.85	-0.355
GMCSF	0.473	0.116
IFNab	0.925	0.747
IFNg	0.786	0.158
IFNg_GMCSF1	0.487	-0.575
Rv1432_day32	-0.587	-0.022
Rv1565c_day32	0.665	0.379
secA2_input	-0.983	0.063
delta_Rv3594	0.433	0.102
delta_Rv3717	0.371	-0.072
delta_Rv3811	-0.284	-1.029
delta_Rv0954	0.366	-0.662
PonA1	0.669	-0.19
EccD1_KO	0.043	-0.26
EspI_KO	0.724	0.334
PE35_KO	0.508	-0.193
PPE68_KO	0.557	-0.522
glycerol2	-0.147	-0.446
lignocerate	0.035	-0.409
oleate	0.322	-0.489
phosphatidylcholine	0.265	-0.598
acetate	0.095	-0.218
glucAc	-0.124	-0.234
Rv0950ko	-0.356	0.724
Rv1096ko	0.112	0.368
Rv3684ko	0.121	0.0
delta_otsA_trehalose	0.34	-0.84