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 Rv0356c/-:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv1182/papA3	(cc=0.5908)	info on Rv1182/papA3
Rv3607c/folB	(cc=0.5747)	info on Rv3607c/folB
Rv2559c/-	(cc=0.5718)	info on Rv2559c/-
Rv3328c/sigJ	(cc=0.5619)	info on Rv3328c/sigJ
Rv1316c/ogt	(cc=0.5553)	info on Rv1316c/ogt
Rv2015c/-	(cc=0.5519)	info on Rv2015c/-
Rv3824c/papA1	(cc=0.5479)	info on Rv3824c/papA1
Rv1815/-	(cc=0.5363)	info on Rv1815/-
Rv2340c/PE_PGRS39	(cc=0.5304)	info on Rv2340c/PE_PGRS39
Rv0985c/mscL	(cc=0.529)	info on Rv0985c/mscL

Correlation of Rv0356c/- with Rv1182/papA3

Normalized LFCs for Rv0356c/-:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv0356c/-	Rv1182/papA3
Fe_supp_jason_reseq	0.851	0.169
low_pH_jason_reseq	-0.323	0.915
NO_jason_reseq	0.228	0.478
B6_jason_reseq	1.276	1.789
MHCII_jason_reseq	1.932	1.842
Isoniazid02	-0.992	0.332
Rifampicin4	0.428	0.0
Ethambutol3	2.255	1.685
Meropenem3	-0.012	-0.025
Vancomycin16	-0.199	0.212
Rv2680_day32	-1.263	-0.193
H37Rv_KO_MarP	1.075	0.574
hypoxia_3wks	-0.905	-0.69
hypoxia_6wks	-0.812	-0.422
glycerol	1.113	-0.038
cholesterol	-0.369	0.461
AJ	0.906	0.197
Bibs02	0.256	0.356
Bibs02c	-0.133	-0.136
BL6	-0.311	-1.421
BL6a	-0.442	-1.221
BXD01	-0.487	-1.839
BXD010	-0.738	-0.665
BXD011	-0.563	-1.4
BXD03	-1.073	-1.347
BXD04	-0.065	-1.975
BXD05	-0.454	-1.256
BXD06	-0.59	-1.566
BXD07	-0.58	-1.599
BXD08	-1.1	-1.241
BXD09	-1.099	-1.4
CAST	0.834	0.155
CCcont	-0.782	-1.219
DS01	0.794	0.385
DS02	0.723	0.271
DS04	0.107	0.756
DS0c	-0.198	0.245
GP01	0.614	-1.394
GP02	0.153	-1.579
GP0c	-0.273	-1.63
NOD	0.805	0.952
NZO	0.475	0.013
PWK	0.368	0.668
H37Rv_KO_CtpC	-0.892	-0.624
H37Rv_KO_CtpD	0.296	-1.918
H37Rv_KO_Rv1272	-0.436	-0.952
H37Rv_KO_SugABC	-0.692	-0.837
H37Rv_KO_MbtN	-0.731	0.122
Trans05	-0.351	0.191
macrophage_unactivated	-1.203	-2.039
IL1	-0.97	-0.718
Rapamycin	-1.608	-0.967
Tcell	-1.284	-2.105
GMCSF	-0.026	-1.41
IFNab	-1.318	-1.953
IFNg	-0.874	-2.793
IFNg_GMCSF1	-0.905	-1.609
Rv1432_day32	-0.172	-0.508
Rv1565c_day32	-1.369	0.088
secA2_input	-0.988	0.0
delta_Rv3594	0.021	0.502
delta_Rv3717	0.034	-0.268
delta_Rv3811	0.232	0.827
delta_Rv0954	0.137	0.24
PonA1	1.064	-0.067
EccD1_KO	0.881	0.207
EspI_KO	-0.248	0.75
PE35_KO	0.298	1.21
PPE68_KO	0.717	1.011
glycerol2	-0.024	0.518
lignocerate	-0.153	0.728
oleate	-0.448	0.071
phosphatidylcholine	-0.228	0.171
acetate	0.231	-0.153
glucAc	-0.168	-0.356
Rv0950ko	-0.148	-1.152
Rv1096ko	-0.76	-0.959
Rv3684ko	-1.464	-1.624
delta_otsA_trehalose	1.351	-0.651