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 Rv0068/-:

update plot	correlation	link to info on gene
Rv3762c/-	(cc=0.4881)	info on Rv3762c/-
Rv0369c/-	(cc=0.472)	info on Rv0369c/-
Rv1496/-	(cc=0.4695)	info on Rv1496/-
Rv3108/-	(cc=0.4644)	info on Rv3108/-
Rv0844c/narL	(cc=0.4525)	info on Rv0844c/narL
Rv1517/-	(cc=0.4492)	info on Rv1517/-
Rv2151c/ftsQ	(cc=0.4403)	info on Rv2151c/ftsQ
Rv2758c/vapB21	(cc=0.4365)	info on Rv2758c/vapB21
Rv3398c/idsA1	(cc=0.434)	info on Rv3398c/idsA1
Rv3828c/-	(cc=0.432)	info on Rv3828c/-

Correlation of Rv0068/- with Rv3108/-

Normalized LFCs for Rv0068/-:
(description and provenance of datasets)

	Rv0068/-	Rv3108/-
Fe_supp_jason_reseq	1.209	-1.688
low_pH_jason_reseq	-0.487	-0.527
NO_jason_reseq	0.055	-1.449
B6_jason_reseq	-0.62	-3.642
MHCII_jason_reseq	-1.187	-3.207
Isoniazid02	0.067	-2.722
Rifampicin4	-0.309	0.143
Ethambutol3	-0.159	-2.754
Meropenem3	-0.188	-2.074
Vancomycin16	0.3	-0.804
Rv2680_day32	0.158	1.988
H37Rv_KO_MarP	0.93	-0.974
hypoxia_3wks	0.179	-1.232
hypoxia_6wks	0.203	-1.142
glycerol	-0.205	-0.781
cholesterol	0.727	4.538
AJ	0.101	-1.356
Bibs02	-0.657	-2.742
Bibs02c	-0.796	-1.516
BL6	0.515	0.031
BL6a	0.0	0.595
BXD01	0.503	0.96
BXD010	0.304	0.361
BXD011	0.0	0.258
BXD03	0.949	2.155
BXD04	0.801	1.291
BXD05	-0.03	0.065
BXD06	0.348	0.588
BXD07	0.108	0.467
BXD08	0.26	-0.214
BXD09	0.031	0.619
CAST	-0.369	-0.179
CCcont	0.836	0.037
DS01	-0.337	-1.487
DS02	-0.424	-1.47
DS04	-0.103	-0.551
DS0c	0.17	0.105
GP01	0.117	-1.481
GP02	-0.307	-1.165
GP0c	-0.289	-1.95
NOD	-0.19	-0.869
NZO	-0.461	-2.146
PWK	0.578	-0.831
H37Rv_KO_CtpC	0.568	0.079
H37Rv_KO_CtpD	1.114	2.216
H37Rv_KO_Rv1272	0.267	-0.447
H37Rv_KO_SugABC	1.087	0.614
H37Rv_KO_MbtN	0.72	1.659
Trans05	0.198	-0.415
macrophage_unactivated	0.912	-1.121
IL1	0.629	0.908
Rapamycin	0.451	-0.335
Tcell	1.271	1.329
GMCSF	0.388	-0.766
IFNab	0.444	1.113
IFNg	0.214	0.462
IFNg_GMCSF1	0.17	-0.167
Rv1432_day32	0.519	0.18
Rv1565c_day32	0.25	0.637
secA2_input	0.111	2.052
delta_Rv3594	-0.338	-0.133
delta_Rv3717	-0.703	1.051
delta_Rv3811	-0.265	1.194
delta_Rv0954	-0.651	-2.16
PonA1	0.639	0.404
EccD1_KO	0.372	2.361
EspI_KO	-0.436	-0.134
PE35_KO	0.175	2.094
PPE68_KO	0.157	1.51
glycerol2	0.595	-2.413
lignocerate	0.401	-1.218
oleate	0.55	-0.301
phosphatidylcholine	0.525	-1.401
acetate	-0.219	-1.662
glucAc	-0.089	-1.572
Rv0950ko	0.467	0.259
Rv1096ko	0.926	1.674
Rv3684ko	-0.406	0.19
delta_otsA_trehalose	-0.913	-0.599