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 Rv1376/-:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv0964c/-	(cc=0.5937)	info on Rv0964c/-
Rv1057/-	(cc=0.5492)	info on Rv1057/-
Rv3605c/-	(cc=0.5253)	info on Rv3605c/-
Rv1180/pks3	(cc=0.5185)	info on Rv1180/pks3
Rv0758/phoR	(cc=0.5152)	info on Rv0758/phoR
Rv2633c/-	(cc=0.5098)	info on Rv2633c/-
Rv2474c/-	(cc=0.5087)	info on Rv2474c/-
Rv3354/-	(cc=0.5009)	info on Rv3354/-
Rv0441c/-	(cc=0.4967)	info on Rv0441c/-
Rv2636/-	(cc=0.4963)	info on Rv2636/-

Correlation of Rv1376/- with Rv0964c/-

Normalized LFCs for Rv1376/-:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv1376/-	Rv0964c/-
Fe_supp_jason_reseq	-0.511	-2.796
low_pH_jason_reseq	1.705	0.524
NO_jason_reseq	-0.192	-0.953
B6_jason_reseq	0.374	0.912
MHCII_jason_reseq	0.866	0.963
Isoniazid02	0.541	0.242
Rifampicin4	0.796	0.663
Ethambutol3	0.564	-0.303
Meropenem3	-0.071	-0.277
Vancomycin16	0.061	0.366
Rv2680_day32	-0.323	-0.423
H37Rv_KO_MarP	0.27	-0.085
hypoxia_3wks	0.08	0.0
hypoxia_6wks	-0.086	0.699
glycerol	0.187	-0.149
cholesterol	-0.353	-0.378
AJ	0.484	-0.619
Bibs02	-0.682	0.461
Bibs02c	0.133	0.249
BL6	-0.251	-0.242
BL6a	-0.105	-0.815
BXD01	-0.904	-1.849
BXD010	-0.79	-2.665
BXD011	-0.149	-1.69
BXD03	-0.595	0.14
BXD04	-0.55	-1.484
BXD05	-0.57	-2.345
BXD06	-0.512	-1.655
BXD07	-0.97	-1.183
BXD08	-0.731	-1.414
BXD09	-0.618	-1.783
CAST	0.402	1.098
CCcont	0.119	-0.802
DS01	-0.368	0.739
DS02	-0.022	0.707
DS04	0.0	0.802
DS0c	-0.278	0.33
GP01	0.639	-0.176
GP02	1.11	-0.148
GP0c	0.169	0.267
NOD	0.438	0.399
NZO	-0.503	-0.63
PWK	-0.213	0.081
H37Rv_KO_CtpC	-1.299	-2.904
H37Rv_KO_CtpD	0.172	0.829
H37Rv_KO_Rv1272	-0.562	-1.711
H37Rv_KO_SugABC	-0.799	-0.634
H37Rv_KO_MbtN	-0.14	-1.751
Trans05	-0.889	-1.834
macrophage_unactivated	-0.303	-0.275
IL1	-0.05	0.092
Rapamycin	-0.018	0.095
Tcell	-0.192	0.365
GMCSF	-0.061	0.689
IFNab	-0.599	-1.046
IFNg	0.195	-0.452
IFNg_GMCSF1	-0.053	-0.035
Rv1432_day32	0.189	1.55
Rv1565c_day32	0.104	-2.41
secA2_input	0.756	0.388
delta_Rv3594	-0.012	-0.203
delta_Rv3717	-0.083	-0.321
delta_Rv3811	-0.589	-1.02
delta_Rv0954	0.141	-1.344
PonA1	0.91	-0.756
EccD1_KO	0.687	0.52
EspI_KO	0.285	-0.508
PE35_KO	0.292	1.088
PPE68_KO	0.448	1.657
glycerol2	0.374	2.826
lignocerate	0.855	3.942
oleate	0.305	1.969
phosphatidylcholine	0.689	3.419
acetate	0.56	4.683
glucAc	0.686	3.524
Rv0950ko	0.329	-0.178
Rv1096ko	-0.25	-0.458
Rv3684ko	-0.416	-0.786
delta_otsA_trehalose	0.594	-0.415