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 Rv2250A/-:

update plot	correlation	link to info on gene
Rv2270/lppN	(cc=0.5949)	info on Rv2270/lppN
Rv0526/-	(cc=0.5679)	info on Rv0526/-
Rv2484c/-	(cc=0.5622)	info on Rv2484c/-
Rv3265c/wbbL1	(cc=0.5381)	info on Rv3265c/wbbL1
Rv0817c/-	(cc=0.523)	info on Rv0817c/-
Rv0889c/citA	(cc=0.5197)	info on Rv0889c/citA
Rv1773c/-	(cc=0.5099)	info on Rv1773c/-
Rv2980/-	(cc=0.498)	info on Rv2980/-
Rv3332/nagA	(cc=0.4945)	info on Rv3332/nagA
Rv1939/-	(cc=0.4726)	info on Rv1939/-

Correlation of Rv2250A/- with Rv0526/-

Normalized LFCs for Rv2250A/-:
(description and provenance of datasets)

	Rv2250A/-	Rv0526/-
Fe_supp_jason_reseq	-1.339	0.0
low_pH_jason_reseq	-2.397	0.0
NO_jason_reseq	0.643	0.0
B6_jason_reseq	1.98	0.0
MHCII_jason_reseq	-1.4	0.0
Isoniazid02	1.609	0.0
Rifampicin4	0.555	0.0
Ethambutol3	0.421	0.0
Meropenem3	-0.153	0.0
Vancomycin16	1.573	0.0
Rv2680_day32	1.844	0.0
H37Rv_KO_MarP	-0.207	0.0
hypoxia_3wks	-1.176	0.0
hypoxia_6wks	-1.576	0.0
glycerol	-0.214	0.0
cholesterol	-0.599	0.0
AJ	-1.978	0.0
Bibs02	-1.733	0.0
Bibs02c	-3.206	0.0
BL6	-2.156	0.0
BL6a	-1.877	0.0
BXD01	-1.301	0.0
BXD010	-1.577	0.0
BXD011	-1.272	0.0
BXD03	-1.5	0.0
BXD04	-2.131	0.0
BXD05	-1.95	0.0
BXD06	-1.644	0.0
BXD07	-2.006	0.0
BXD08	-2.159	0.0
BXD09	-1.332	0.0
CAST	-0.572	0.0
CCcont	-2.574	0.0
DS01	-3.239	0.0
DS02	-3.151	0.0
DS04	1.089	0.0
DS0c	-3.521	0.0
GP01	-1.702	0.0
GP02	-1.434	0.0
GP0c	-2.241	0.0
NOD	1.365	0.0
NZO	-1.445	0.0
PWK	-2.065	0.0
H37Rv_KO_CtpC	-2.354	0.0
H37Rv_KO_CtpD	-1.737	0.0
H37Rv_KO_Rv1272	-0.463	0.0
H37Rv_KO_SugABC	-1.22	0.0
H37Rv_KO_MbtN	-1.493	0.0
Trans05	0.823	0.0
macrophage_unactivated	-3.794	0.0
IL1	-1.293	0.0
Rapamycin	-2.526	0.0
Tcell	-1.421	0.0
GMCSF	-3.174	0.0
IFNab	-0.396	0.0
IFNg	-2.51	0.0
IFNg_GMCSF1	-0.635	0.0
Rv1432_day32	0.0	0.0
Rv1565c_day32	1.322	0.0
secA2_input	0.202	-0.412
delta_Rv3594	-0.661	0.0
delta_Rv3717	-1.388	0.0
delta_Rv3811	-3.771	0.205
delta_Rv0954	1.682	0.0
PonA1	-1.773	0.0
EccD1_KO	3.848	0.0
EspI_KO	1.743	0.0
PE35_KO	3.36	0.767
PPE68_KO	2.038	0.442
glycerol2	-4.496	-1.499
lignocerate	-4.413	-1.303
oleate	-3.899	-1.517
phosphatidylcholine	-4.258	-1.499
acetate	-6.0	-1.779
glucAc	-4.351	-1.106
Rv0950ko	0.971	0.416
Rv1096ko	0.844	0.0
Rv3684ko	-0.727	0.0
delta_otsA_trehalose	-2.076	0.0