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 Rv1527c/pks5:

update plot	correlation	link to info on gene
Rv1838c/vapC13	(cc=0.5927)	info on Rv1838c/vapC13
Rv2123/PPE37	(cc=0.534)	info on Rv2123/PPE37
Rv0278c/PE_PGRS3	(cc=0.5279)	info on Rv0278c/PE_PGRS3
Rv0969/ctpV	(cc=0.5033)	info on Rv0969/ctpV
Rv1834/lipZ	(cc=0.5007)	info on Rv1834/lipZ
Rv1760/-	(cc=0.4985)	info on Rv1760/-
Rv2177c/-	(cc=0.4975)	info on Rv2177c/-
Rv1625c/cya	(cc=0.4968)	info on Rv1625c/cya
Rv1263/amiB2	(cc=0.4927)	info on Rv1263/amiB2
Rv2025c/-	(cc=0.4908)	info on Rv2025c/-

Correlation of Rv1527c/pks5 with Rv1834/lipZ

Normalized LFCs for Rv1527c/pks5:
(description and provenance of datasets)

	Rv1527c/pks5	Rv1834/lipZ
Fe_supp_jason_reseq	0.175	-1.206
low_pH_jason_reseq	-0.587	-1.429
NO_jason_reseq	-0.155	-0.118
B6_jason_reseq	0.181	-0.153
MHCII_jason_reseq	0.229	0.675
Isoniazid02	-0.015	0.067
Rifampicin4	-0.057	-0.753
Ethambutol3	0.225	-0.409
Meropenem3	0.915	0.544
Vancomycin16	-0.056	-0.589
Rv2680_day32	-0.199	0.179
H37Rv_KO_MarP	0.189	-0.199
hypoxia_3wks	0.159	-0.494
hypoxia_6wks	0.294	0.693
glycerol	0.196	1.011
cholesterol	0.013	-0.287
AJ	0.622	0.183
Bibs02	0.15	0.154
Bibs02c	0.477	1.15
BL6	0.251	-1.02
BL6a	0.066	-0.023
BXD01	-0.215	-1.259
BXD010	0.021	-2.69
BXD011	-0.262	-1.546
BXD03	-0.108	-2.962
BXD04	-0.508	-2.493
BXD05	0.022	-1.942
BXD06	-0.39	-1.572
BXD07	-0.036	-1.875
BXD08	0.022	-1.191
BXD09	-0.304	-2.028
CAST	-0.12	0.766
CCcont	0.025	-1.2
DS01	0.554	0.147
DS02	0.126	-0.199
DS04	0.455	0.132
DS0c	0.325	-0.143
GP01	1.712	-0.122
GP02	0.477	-0.415
GP0c	0.555	-0.737
NOD	0.304	0.353
NZO	0.314	0.069
PWK	-0.017	0.318
H37Rv_KO_CtpC	0.314	-0.245
H37Rv_KO_CtpD	0.143	-0.316
H37Rv_KO_Rv1272	0.415	-0.745
H37Rv_KO_SugABC	0.611	-0.204
H37Rv_KO_MbtN	-0.13	0.75
Trans05	0.289	-0.469
macrophage_unactivated	-0.158	-1.569
IL1	-0.074	-0.059
Rapamycin	-0.114	-1.525
Tcell	-0.081	-1.098
GMCSF	0.19	0.85
IFNab	-0.151	-1.953
IFNg	-0.134	-1.328
IFNg_GMCSF1	0.189	-0.679
Rv1432_day32	0.216	0.674
Rv1565c_day32	-0.104	0.971
secA2_input	0.523	0.218
delta_Rv3594	0.021	-0.541
delta_Rv3717	-0.374	-0.18
delta_Rv3811	0.312	-0.039
delta_Rv0954	-0.172	-0.012
PonA1	0.492	-0.039
EccD1_KO	0.089	0.881
EspI_KO	0.262	0.607
PE35_KO	0.23	0.125
PPE68_KO	0.378	-0.141
glycerol2	0.46	0.893
lignocerate	0.673	0.955
oleate	0.373	-0.157
phosphatidylcholine	0.696	0.609
acetate	0.845	1.199
glucAc	0.441	1.101
Rv0950ko	0.422	0.401
Rv1096ko	0.311	0.67
Rv3684ko	0.498	0.282
delta_otsA_trehalose	0.551	0.908