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 Rv1760/-

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

	Rv1527c/pks5	Rv1760/-
Fe_supp_jason_reseq	0.175	0.36
low_pH_jason_reseq	-0.587	-1.173
NO_jason_reseq	-0.155	0.333
B6_jason_reseq	0.181	0.16
MHCII_jason_reseq	0.229	0.248
Isoniazid02	-0.015	0.278
Rifampicin4	-0.057	0.016
Ethambutol3	0.225	0.28
Meropenem3	0.915	1.035
Vancomycin16	-0.056	0.119
Rv2680_day32	-0.199	-0.408
H37Rv_KO_MarP	0.189	-0.141
hypoxia_3wks	0.159	-0.064
hypoxia_6wks	0.294	0.098
glycerol	0.196	0.176
cholesterol	0.013	0.434
AJ	0.622	0.745
Bibs02	0.15	0.065
Bibs02c	0.477	-0.07
BL6	0.251	0.0
BL6a	0.066	-0.195
BXD01	-0.215	0.028
BXD010	0.021	-0.168
BXD011	-0.262	0.041
BXD03	-0.108	-0.245
BXD04	-0.508	0.044
BXD05	0.022	-0.117
BXD06	-0.39	-0.196
BXD07	-0.036	-0.306
BXD08	0.022	0.298
BXD09	-0.304	-0.189
CAST	-0.12	0.405
CCcont	0.025	-0.106
DS01	0.554	0.252
DS02	0.126	0.153
DS04	0.455	-0.056
DS0c	0.325	0.159
GP01	1.712	0.953
GP02	0.477	1.058
GP0c	0.555	0.478
NOD	0.304	0.849
NZO	0.314	0.63
PWK	-0.017	0.529
H37Rv_KO_CtpC	0.314	0.162
H37Rv_KO_CtpD	0.143	0.262
H37Rv_KO_Rv1272	0.415	0.751
H37Rv_KO_SugABC	0.611	-0.21
H37Rv_KO_MbtN	-0.13	0.494
Trans05	0.289	0.36
macrophage_unactivated	-0.158	0.271
IL1	-0.074	-0.347
Rapamycin	-0.114	-0.457
Tcell	-0.081	-0.339
GMCSF	0.19	-0.032
IFNab	-0.151	-0.472
IFNg	-0.134	0.0
IFNg_GMCSF1	0.189	0.83
Rv1432_day32	0.216	0.082
Rv1565c_day32	-0.104	-0.125
secA2_input	0.523	-0.18
delta_Rv3594	0.021	-0.067
delta_Rv3717	-0.374	0.006
delta_Rv3811	0.312	0.071
delta_Rv0954	-0.172	0.317
PonA1	0.492	0.15
EccD1_KO	0.089	-0.622
EspI_KO	0.262	-0.716
PE35_KO	0.23	-0.365
PPE68_KO	0.378	-0.301
glycerol2	0.46	0.391
lignocerate	0.673	0.592
oleate	0.373	0.285
phosphatidylcholine	0.696	0.609
acetate	0.845	-0.101
glucAc	0.441	0.213
Rv0950ko	0.422	0.467
Rv1096ko	0.311	-0.106
Rv3684ko	0.498	0.151
delta_otsA_trehalose	0.551	0.432