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 Rv1067c/PE_PGRS19:

update plot	correlation	link to info on gene
Rv0578c/PE_PGRS7	(cc=0.5722)	info on Rv0578c/PE_PGRS7
Rv1091/PE_PGRS22	(cc=0.5702)	info on Rv1091/PE_PGRS22
Rv1452c/PE_PGRS28	(cc=0.5443)	info on Rv1452c/PE_PGRS28
Rv0526/-	(cc=0.5346)	info on Rv0526/-
Rv3533c/PPE62	(cc=0.5314)	info on Rv3533c/PPE62
Rv3022A/PE29	(cc=0.5123)	info on Rv3022A/PE29
Rv1709/scpA	(cc=0.4986)	info on Rv1709/scpA
Rv1756c/-	(cc=0.4911)	info on Rv1756c/-
Rv0598c/vapC27	(cc=0.4799)	info on Rv0598c/vapC27
Rv2228c/-	(cc=0.474)	info on Rv2228c/-

Correlation of Rv1067c/PE_PGRS19 with Rv0526/-

Normalized LFCs for Rv1067c/PE_PGRS19:
(description and provenance of datasets)

	Rv1067c/PE_PGRS19	Rv0526/-
Fe_supp_jason_reseq	0.137	0.0
low_pH_jason_reseq	-0.734	0.0
NO_jason_reseq	-0.559	0.0
B6_jason_reseq	-0.082	0.0
MHCII_jason_reseq	-0.054	0.0
Isoniazid02	-0.706	0.0
Rifampicin4	-0.087	0.0
Ethambutol3	-0.019	0.0
Meropenem3	1.429	0.0
Vancomycin16	-0.589	0.0
Rv2680_day32	-0.223	0.0
H37Rv_KO_MarP	-0.133	0.0
hypoxia_3wks	-0.056	0.0
hypoxia_6wks	-0.589	0.0
glycerol	1.303	0.0
cholesterol	0.513	0.0
AJ	1.277	0.0
Bibs02	0.313	0.0
Bibs02c	0.474	0.0
BL6	-0.18	0.0
BL6a	-0.174	0.0
BXD01	0.78	0.0
BXD010	0.104	0.0
BXD011	-0.313	0.0
BXD03	-0.046	0.0
BXD04	-0.178	0.0
BXD05	-0.22	0.0
BXD06	0.407	0.0
BXD07	0.068	0.0
BXD08	0.471	0.0
BXD09	0.135	0.0
CAST	0.36	0.0
CCcont	0.025	0.0
DS01	0.154	0.0
DS02	0.521	0.0
DS04	0.386	0.0
DS0c	0.401	0.0
GP01	1.139	0.0
GP02	1.098	0.0
GP0c	0.24	0.0
NOD	0.285	0.0
NZO	0.608	0.0
PWK	0.128	0.0
H37Rv_KO_CtpC	0.454	0.0
H37Rv_KO_CtpD	0.874	0.0
H37Rv_KO_Rv1272	0.69	0.0
H37Rv_KO_SugABC	-0.034	0.0
H37Rv_KO_MbtN	-0.616	0.0
Trans05	-0.469	0.0
macrophage_unactivated	-0.117	0.0
IL1	-1.16	0.0
Rapamycin	-0.405	0.0
Tcell	-0.365	0.0
GMCSF	0.615	0.0
IFNab	-0.46	0.0
IFNg	-0.569	0.0
IFNg_GMCSF1	0.057	0.0
Rv1432_day32	0.428	0.0
Rv1565c_day32	-0.648	0.0
secA2_input	1.522	-0.412
delta_Rv3594	-0.326	0.0
delta_Rv3717	-0.596	0.0
delta_Rv3811	-0.36	0.205
delta_Rv0954	-1.79	0.0
PonA1	0.029	0.0
EccD1_KO	0.608	0.0
EspI_KO	0.034	0.0
PE35_KO	0.572	0.767
PPE68_KO	0.118	0.442
glycerol2	-1.886	-1.499
lignocerate	-1.465	-1.303
oleate	-0.8	-1.517
phosphatidylcholine	-1.335	-1.499
acetate	-1.682	-1.779
glucAc	-1.271	-1.106
Rv0950ko	0.208	0.416
Rv1096ko	0.238	0.0
Rv3684ko	-0.17	0.0
delta_otsA_trehalose	0.157	0.0