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 Rv1873/-:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv2464c/-	(cc=0.5248)	info on Rv2464c/-
Rv1755c/plcD	(cc=0.5083)	info on Rv1755c/plcD
Rv2351c/plcA	(cc=0.4941)	info on Rv2351c/plcA
Rv2713/sthA	(cc=0.457)	info on Rv2713/sthA
Rv2025c/-	(cc=0.4534)	info on Rv2025c/-
Rv3395A/-	(cc=0.4477)	info on Rv3395A/-
Rv3018c/PPE46	(cc=0.4448)	info on Rv3018c/PPE46
Rv3366/spoU	(cc=0.441)	info on Rv3366/spoU
Rv1934c/fadE17	(cc=0.4407)	info on Rv1934c/fadE17
Rv1871c/-	(cc=0.4405)	info on Rv1871c/-

Correlation of Rv1873/- with Rv2464c/-

Normalized LFCs for Rv1873/-:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv1873/-	Rv2464c/-
Fe_supp_jason_reseq	-0.407	-0.502
low_pH_jason_reseq	-0.616	-0.718
NO_jason_reseq	0.352	0.155
B6_jason_reseq	0.022	-0.827
MHCII_jason_reseq	0.371	-0.638
Isoniazid02	0.389	0.844
Rifampicin4	0.344	0.612
Ethambutol3	0.939	0.801
Meropenem3	0.656	0.545
Vancomycin16	0.297	0.801
Rv2680_day32	-0.217	0.444
H37Rv_KO_MarP	-0.137	-0.243
hypoxia_3wks	0.379	0.152
hypoxia_6wks	-0.035	0.23
glycerol	-0.418	0.372
cholesterol	-0.205	-0.11
AJ	-0.366	-0.119
Bibs02	0.326	0.225
Bibs02c	-0.609	-1.005
BL6	-0.571	-0.698
BL6a	-0.179	-0.484
BXD01	-0.157	0.172
BXD010	0.306	0.448
BXD011	-0.084	0.179
BXD03	-0.386	-0.594
BXD04	-0.12	0.451
BXD05	0.175	-0.256
BXD06	-0.223	-0.309
BXD07	-0.1	-0.156
BXD08	-0.5	0.427
BXD09	-0.216	-0.268
CAST	0.028	-0.534
CCcont	-0.79	-0.34
DS01	-0.115	-0.113
DS02	-0.063	0.287
DS04	0.083	0.357
DS0c	-0.423	-0.222
GP01	1.009	1.109
GP02	0.38	1.169
GP0c	0.506	0.97
NOD	0.48	0.322
NZO	-0.48	0.221
PWK	-0.182	0.367
H37Rv_KO_CtpC	0.494	0.63
H37Rv_KO_CtpD	-0.666	0.464
H37Rv_KO_Rv1272	-0.226	-0.197
H37Rv_KO_SugABC	0.452	0.242
H37Rv_KO_MbtN	1.121	-0.068
Trans05	-0.222	0.276
macrophage_unactivated	-0.035	-0.363
IL1	-1.103	-0.967
Rapamycin	-0.11	-0.451
Tcell	-0.541	-0.375
GMCSF	0.359	-0.422
IFNab	-0.453	-0.665
IFNg	-0.486	-0.572
IFNg_GMCSF1	-0.349	-0.691
Rv1432_day32	-0.008	-0.047
Rv1565c_day32	0.0	0.891
secA2_input	-0.269	0.859
delta_Rv3594	-0.459	0.457
delta_Rv3717	-0.535	0.451
delta_Rv3811	-0.348	-0.129
delta_Rv0954	-0.518	0.513
PonA1	-0.381	0.179
EccD1_KO	0.306	0.141
EspI_KO	0.011	0.188
PE35_KO	-0.327	-0.015
PPE68_KO	-0.333	-0.205
glycerol2	0.607	0.893
lignocerate	0.593	0.717
oleate	0.964	1.143
phosphatidylcholine	0.873	1.158
acetate	-0.08	0.206
glucAc	0.005	0.074
Rv0950ko	0.422	-0.106
Rv1096ko	0.47	-0.709
Rv3684ko	-0.056	-0.278
delta_otsA_trehalose	-0.168	-0.413