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 Rv0130/htdZ:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv0760c/-	(cc=0.4933)	info on Rv0760c/-
Rv0188/-	(cc=0.4651)	info on Rv0188/-
Rv2775/-	(cc=0.4627)	info on Rv2775/-
Rv1662/pks8	(cc=0.4532)	info on Rv1662/pks8
Rv0990c/-	(cc=0.4354)	info on Rv0990c/-
Rv3138/pflA	(cc=0.4242)	info on Rv3138/pflA
Rv0078/-	(cc=0.4131)	info on Rv0078/-
Rv1498c/-	(cc=0.4113)	info on Rv1498c/-
Rv2496c/bkdB	(cc=0.4062)	info on Rv2496c/bkdB
Rv3829c/-	(cc=0.4047)	info on Rv3829c/-

Correlation of Rv0130/htdZ with Rv0760c/-

Normalized LFCs for Rv0130/htdZ:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv0130/htdZ	Rv0760c/-
Fe_supp_jason_reseq	-1.467	-0.03
low_pH_jason_reseq	-0.544	-0.228
NO_jason_reseq	-0.055	-0.2
B6_jason_reseq	-0.626	-0.084
MHCII_jason_reseq	-0.694	-0.074
Isoniazid02	-2.466	0.058
Rifampicin4	-1.73	-0.625
Ethambutol3	-1.065	-0.083
Meropenem3	-0.833	-0.315
Vancomycin16	-2.157	-0.18
Rv2680_day32	-0.249	0.614
H37Rv_KO_MarP	0.838	-0.58
hypoxia_3wks	-1.188	1.029
hypoxia_6wks	-0.622	-0.378
glycerol	-0.907	0.116
cholesterol	-0.797	-0.861
AJ	-0.029	0.341
Bibs02	-3.696	0.172
Bibs02c	-2.805	0.377
BL6	0.616	1.024
BL6a	-0.353	1.002
BXD01	1.054	0.706
BXD010	1.661	1.072
BXD011	0.985	-0.31
BXD03	-1.262	1.342
BXD04	-1.154	0.341
BXD05	3.157	1.818
BXD06	0.274	0.306
BXD07	0.0	-0.055
BXD08	0.016	0.896
BXD09	0.859	0.711
CAST	0.472	1.885
CCcont	-0.643	0.318
DS01	0.228	-0.245
DS02	1.054	1.679
DS04	-0.465	0.475
DS0c	-0.933	1.123
GP01	1.056	1.519
GP02	-0.829	0.47
GP0c	-1.135	0.0
NOD	-0.176	0.877
NZO	1.532	-0.039
PWK	0.722	0.895
H37Rv_KO_CtpC	1.05	1.112
H37Rv_KO_CtpD	-1.884	-0.512
H37Rv_KO_Rv1272	1.221	1.987
H37Rv_KO_SugABC	-0.567	1.157
H37Rv_KO_MbtN	1.877	0.942
Trans05	1.241	1.943
macrophage_unactivated	1.597	1.222
IL1	1.326	0.89
Rapamycin	0.0	0.485
Tcell	0.831	1.121
GMCSF	-0.61	0.544
IFNab	0.0	0.323
IFNg	0.826	1.563
IFNg_GMCSF1	-0.434	-0.968
Rv1432_day32	-1.033	1.915
Rv1565c_day32	0.0	-0.766
secA2_input	-0.712	-0.131
delta_Rv3594	-1.874	-0.187
delta_Rv3717	-1.116	0.693
delta_Rv3811	-2.439	-0.431
delta_Rv0954	-1.425	0.056
PonA1	-3.371	0.033
EccD1_KO	3.289	2.368
EspI_KO	-0.339	0.764
PE35_KO	2.78	0.86
PPE68_KO	3.52	0.857
glycerol2	-2.409	0.178
lignocerate	-1.196	-0.416
oleate	1.544	0.391
phosphatidylcholine	-1.325	-0.154
acetate	-0.062	0.459
glucAc	-1.172	-0.89
Rv0950ko	-0.805	0.507
Rv1096ko	1.224	0.636
Rv3684ko	1.421	0.157
delta_otsA_trehalose	0.0	-0.876