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 Rv1468c/PE_PGRS29:

update plot	correlation	link to info on gene
Rv2205c/-	(cc=0.5487)	info on Rv2205c/-
Rv3344c/PE_PGRS49	(cc=0.4809)	info on Rv3344c/PE_PGRS49
Rv1840c/PE_PGRS34	(cc=0.4791)	info on Rv1840c/PE_PGRS34
Rv3892c/PPE69	(cc=0.4789)	info on Rv3892c/PPE69
Rv1004c/-	(cc=0.4679)	info on Rv1004c/-
Rv1452c/PE_PGRS28	(cc=0.463)	info on Rv1452c/PE_PGRS28
Rv1992c/ctpG	(cc=0.4583)	info on Rv1992c/ctpG
Rv0250c/-	(cc=0.4558)	info on Rv0250c/-
Rv0492c/-	(cc=0.4489)	info on Rv0492c/-
Rv2519/PE26	(cc=0.4469)	info on Rv2519/PE26

Correlation of Rv1468c/PE_PGRS29 with Rv2519/PE26

Normalized LFCs for Rv1468c/PE_PGRS29:
(description and provenance of datasets)

	Rv1468c/PE_PGRS29	Rv2519/PE26
Fe_supp_jason_reseq	0.425	0.458
low_pH_jason_reseq	0.274	-0.074
NO_jason_reseq	-1.229	0.045
B6_jason_reseq	-0.718	-0.416
MHCII_jason_reseq	-0.801	-0.542
Isoniazid02	0.303	0.412
Rifampicin4	1.968	0.387
Ethambutol3	1.278	1.008
Meropenem3	1.473	0.339
Vancomycin16	0.43	0.329
Rv2680_day32	-0.64	0.166
H37Rv_KO_MarP	-0.049	0.147
hypoxia_3wks	-0.694	-0.211
hypoxia_6wks	-0.735	-0.271
glycerol	0.0	0.118
cholesterol	-0.388	0.45
AJ	1.612	-0.047
Bibs02	0.389	0.054
Bibs02c	0.0	0.22
BL6	-0.835	0.795
BL6a	0.0	0.446
BXD01	0.235	0.534
BXD010	-0.675	0.61
BXD011	-0.078	0.328
BXD03	-0.2	0.626
BXD04	0.024	0.605
BXD05	0.308	0.477
BXD06	-0.428	0.848
BXD07	0.339	0.255
BXD08	0.519	0.667
BXD09	0.054	0.427
CAST	0.415	0.22
CCcont	0.168	0.582
DS01	0.652	0.414
DS02	0.789	0.577
DS04	1.835	0.898
DS0c	-0.178	0.189
GP01	1.93	0.489
GP02	0.863	0.524
GP0c	1.155	0.489
NOD	-0.436	-0.14
NZO	0.751	0.559
PWK	0.254	-0.32
H37Rv_KO_CtpC	1.094	1.638
H37Rv_KO_CtpD	2.032	1.208
H37Rv_KO_Rv1272	1.204	1.124
H37Rv_KO_SugABC	0.346	1.198
H37Rv_KO_MbtN	1.692	0.878
Trans05	-0.193	1.06
macrophage_unactivated	-0.117	0.527
IL1	-0.169	0.225
Rapamycin	-0.608	0.068
Tcell	0.059	0.072
GMCSF	0.143	0.441
IFNab	-0.599	-0.172
IFNg	-1.141	-0.278
IFNg_GMCSF1	0.798	0.204
Rv1432_day32	0.07	0.029
Rv1565c_day32	-1.33	0.43
secA2_input	-0.462	-0.495
delta_Rv3594	0.6	-0.09
delta_Rv3717	0.865	0.26
delta_Rv3811	0.708	0.126
delta_Rv0954	1.499	0.202
PonA1	0.99	0.129
EccD1_KO	-0.523	-0.184
EspI_KO	-0.787	0.0
PE35_KO	-0.505	-0.082
PPE68_KO	-0.291	-0.525
glycerol2	-0.22	-0.468
lignocerate	0.033	-0.16
oleate	0.057	-0.885
phosphatidylcholine	-0.262	-0.109
acetate	-0.163	-0.721
glucAc	-0.491	-0.159
Rv0950ko	0.202	-0.096
Rv1096ko	-0.127	-0.618
Rv3684ko	0.177	-0.524
delta_otsA_trehalose	0.284	0.519