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 Rv0969/ctpV

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

	Rv1527c/pks5	Rv0969/ctpV
Fe_supp_jason_reseq	0.175	-0.535
low_pH_jason_reseq	-0.587	-1.522
NO_jason_reseq	-0.155	-0.362
B6_jason_reseq	0.181	-0.715
MHCII_jason_reseq	0.229	-0.391
Isoniazid02	-0.015	0.397
Rifampicin4	-0.057	-0.233
Ethambutol3	0.225	0.581
Meropenem3	0.915	0.492
Vancomycin16	-0.056	-0.324
Rv2680_day32	-0.199	-0.154
H37Rv_KO_MarP	0.189	0.26
hypoxia_3wks	0.159	-0.211
hypoxia_6wks	0.294	0.127
glycerol	0.196	0.291
cholesterol	0.013	0.358
AJ	0.622	0.44
Bibs02	0.15	0.648
Bibs02c	0.477	0.576
BL6	0.251	-0.084
BL6a	0.066	0.264
BXD01	-0.215	-0.556
BXD010	0.021	-0.288
BXD011	-0.262	-0.24
BXD03	-0.108	-0.743
BXD04	-0.508	-0.305
BXD05	0.022	0.268
BXD06	-0.39	-0.558
BXD07	-0.036	-0.301
BXD08	0.022	-0.299
BXD09	-0.304	-0.216
CAST	-0.12	-0.534
CCcont	0.025	-0.391
DS01	0.554	0.303
DS02	0.126	0.15
DS04	0.455	0.611
DS0c	0.325	-0.039
GP01	1.712	0.358
GP02	0.477	-0.205
GP0c	0.555	-0.063
NOD	0.304	-0.109
NZO	0.314	0.046
PWK	-0.017	-0.483
H37Rv_KO_CtpC	0.314	0.139
H37Rv_KO_CtpD	0.143	-0.802
H37Rv_KO_Rv1272	0.415	0.057
H37Rv_KO_SugABC	0.611	0.616
H37Rv_KO_MbtN	-0.13	-0.877
Trans05	0.289	-0.139
macrophage_unactivated	-0.158	0.694
IL1	-0.074	-0.11
Rapamycin	-0.114	0.11
Tcell	-0.081	0.059
GMCSF	0.19	-0.148
IFNab	-0.151	0.163
IFNg	-0.134	0.371
IFNg_GMCSF1	0.189	0.616
Rv1432_day32	0.216	0.322
Rv1565c_day32	-0.104	-0.264
secA2_input	0.523	0.892
delta_Rv3594	0.021	-0.32
delta_Rv3717	-0.374	-0.328
delta_Rv3811	0.312	0.318
delta_Rv0954	-0.172	0.143
PonA1	0.492	0.324
EccD1_KO	0.089	0.382
EspI_KO	0.262	0.24
PE35_KO	0.23	0.292
PPE68_KO	0.378	0.218
glycerol2	0.46	0.15
lignocerate	0.673	0.144
oleate	0.373	0.119
phosphatidylcholine	0.696	0.333
acetate	0.845	0.08
glucAc	0.441	0.157
Rv0950ko	0.422	0.223
Rv1096ko	0.311	1.077
Rv3684ko	0.498	0.609
delta_otsA_trehalose	0.551	2.032