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 Rv1672c/-:

update plot	correlation	link to info on gene
Rv0454/-	(cc=0.4989)	info on Rv0454/-
Rv1215c/-	(cc=0.4562)	info on Rv1215c/-
Rv2333c/stp	(cc=0.4353)	info on Rv2333c/stp
Rv1579c/-	(cc=0.4329)	info on Rv1579c/-
Rv0532/PE_PGRS6	(cc=0.4313)	info on Rv0532/PE_PGRS6
Rv3174/-	(cc=0.4286)	info on Rv3174/-
Rv1105/-	(cc=0.4182)	info on Rv1105/-
Rv1290c/-	(cc=0.418)	info on Rv1290c/-
Rv0078A/-	(cc=0.4078)	info on Rv0078A/-
Rv1482c/-	(cc=0.4058)	info on Rv1482c/-

Correlation of Rv1672c/- with Rv1105/-

Normalized LFCs for Rv1672c/-:
(description and provenance of datasets)

	Rv1672c/-	Rv1105/-
Fe_supp_jason_reseq	0.388	-0.368
low_pH_jason_reseq	-0.549	-0.644
NO_jason_reseq	0.163	0.21
B6_jason_reseq	-0.295	0.503
MHCII_jason_reseq	-0.09	0.521
Isoniazid02	1.635	1.675
Rifampicin4	-0.089	-0.238
Ethambutol3	2.692	2.927
Meropenem3	0.412	0.086
Vancomycin16	0.329	0.342
Rv2680_day32	-0.656	0.789
H37Rv_KO_MarP	-0.425	-0.332
hypoxia_3wks	0.861	1.739
hypoxia_6wks	1.746	1.693
glycerol	0.392	-0.284
cholesterol	0.017	-0.296
AJ	0.358	0.239
Bibs02	0.225	0.78
Bibs02c	-0.209	0.505
BL6	0.231	0.725
BL6a	0.092	0.834
BXD01	0.146	1.447
BXD010	0.502	0.759
BXD011	0.0	1.272
BXD03	0.461	0.604
BXD04	0.24	1.217
BXD05	-0.016	0.944
BXD06	-0.032	1.086
BXD07	0.722	0.992
BXD08	0.205	0.646
BXD09	0.628	0.869
CAST	-0.055	0.053
CCcont	0.017	0.322
DS01	0.137	1.056
DS02	0.904	0.066
DS04	0.09	1.66
DS0c	0.627	0.762
GP01	0.068	-0.072
GP02	0.47	0.074
GP0c	-0.218	0.214
NOD	-0.345	0.675
NZO	0.224	0.061
PWK	0.242	1.047
H37Rv_KO_CtpC	0.267	0.013
H37Rv_KO_CtpD	0.443	-0.039
H37Rv_KO_Rv1272	-0.178	0.214
H37Rv_KO_SugABC	-0.208	-0.822
H37Rv_KO_MbtN	0.37	0.279
Trans05	0.365	0.847
macrophage_unactivated	-0.107	-0.265
IL1	0.033	-0.605
Rapamycin	0.267	-0.555
Tcell	0.991	0.701
GMCSF	0.37	-1.344
IFNab	-0.139	-1.339
IFNg	0.535	-0.265
IFNg_GMCSF1	0.207	-1.568
Rv1432_day32	2.048	-0.541
Rv1565c_day32	0.6	-0.981
secA2_input	-0.257	-0.947
delta_Rv3594	0.439	-0.281
delta_Rv3717	0.072	-0.721
delta_Rv3811	0.596	0.051
delta_Rv0954	0.127	0.751
PonA1	-0.57	-0.807
EccD1_KO	-0.385	0.707
EspI_KO	-0.55	0.516
PE35_KO	0.694	0.219
PPE68_KO	0.544	0.47
glycerol2	-0.165	0.394
lignocerate	-0.166	-0.123
oleate	0.176	0.316
phosphatidylcholine	0.067	0.27
acetate	-0.286	-0.462
glucAc	-0.086	-0.718
Rv0950ko	0.039	0.929
Rv1096ko	0.157	0.28
Rv3684ko	0.128	1.045
delta_otsA_trehalose	-0.96	-1.875