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 Rv3662c/-:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv0641/rplA	(cc=0.5219)	info on Rv0641/rplA
Rv2380c/mbtE	(cc=0.4557)	info on Rv2380c/mbtE
Rv2359/zur	(cc=0.4293)	info on Rv2359/zur
Rv2383c/mbtB	(cc=0.4266)	info on Rv2383c/mbtB
Rv1098c/fum	(cc=0.4231)	info on Rv1098c/fum
Rv3283/sseA	(cc=0.4152)	info on Rv3283/sseA
Rv2384/mbtA	(cc=0.4114)	info on Rv2384/mbtA
Rv2239c/-	(cc=0.4113)	info on Rv2239c/-
Rv1514c/-	(cc=0.4082)	info on Rv1514c/-
Rv1685c/-	(cc=0.3969)	info on Rv1685c/-

Correlation of Rv3662c/- with Rv0641/rplA

Normalized LFCs for Rv3662c/-:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv3662c/-	Rv0641/rplA
Fe_supp_jason_reseq	1.796	0.0
low_pH_jason_reseq	0.0	0.0
NO_jason_reseq	0.0	0.0
B6_jason_reseq	0.0	0.0
MHCII_jason_reseq	0.0	0.0
Isoniazid02	-1.147	0.0
Rifampicin4	0.747	0.0
Ethambutol3	0.617	0.0
Meropenem3	-0.528	0.0
Vancomycin16	-0.905	0.0
Rv2680_day32	-0.359	0.0
H37Rv_KO_MarP	1.583	0.0
hypoxia_3wks	0.0	0.0
hypoxia_6wks	0.0	0.0
glycerol	0.554	0.0
cholesterol	0.276	0.0
AJ	0.232	0.0
Bibs02	0.0	0.0
Bibs02c	0.399	0.0
BL6	0.0	0.0
BL6a	0.0	0.0
BXD01	0.0	0.0
BXD010	0.0	0.0
BXD011	0.0	0.0
BXD03	0.0	0.0
BXD04	0.0	0.0
BXD05	0.135	0.0
BXD06	0.0	0.0
BXD07	0.0	0.0
BXD08	0.0	0.0
BXD09	0.0	0.0
CAST	0.23	0.0
CCcont	0.0	0.0
DS01	0.83	0.0
DS02	1.686	0.0
DS04	1.689	0.0
DS0c	0.217	0.0
GP01	0.0	0.0
GP02	0.0	0.0
GP0c	0.0	0.0
NOD	0.789	0.0
NZO	0.0	0.0
PWK	0.0	0.0
H37Rv_KO_CtpC	0.162	0.0
H37Rv_KO_CtpD	0.0	0.0
H37Rv_KO_Rv1272	0.0	0.0
H37Rv_KO_SugABC	0.0	0.0
H37Rv_KO_MbtN	0.0	0.0
Trans05	0.0	0.0
macrophage_unactivated	0.0	0.0
IL1	0.0	0.0
Rapamycin	0.0	0.0
Tcell	0.0	0.0
GMCSF	0.0	0.0
IFNab	0.0	0.0
IFNg	0.0	0.0
IFNg_GMCSF1	0.0	0.0
Rv1432_day32	0.0	0.0
Rv1565c_day32	0.0	0.0
secA2_input	0.894	0.593
delta_Rv3594	-0.193	0.0
delta_Rv3717	0.279	0.0
delta_Rv3811	0.171	0.0
delta_Rv0954	1.441	0.0
PonA1	-0.304	0.0
EccD1_KO	0.0	0.0
EspI_KO	-0.359	0.0
PE35_KO	0.335	0.0
PPE68_KO	3.004	2.451
glycerol2	0.0	0.0
lignocerate	0.0	0.0
oleate	0.0	0.0
phosphatidylcholine	0.0	0.0
acetate	1.41	0.0
glucAc	0.0	0.0
Rv0950ko	-1.143	0.0
Rv1096ko	0.621	0.0
Rv3684ko	-0.789	0.0
delta_otsA_trehalose	-0.803	0.0