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 Rv2673/aftC:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv1972/-	(cc=0.577)	info on Rv1972/-
Rv2881c/cdsA	(cc=0.5634)	info on Rv2881c/cdsA
Rv1806/PE20	(cc=0.5458)	info on Rv1806/PE20
Rv3187/-	(cc=0.544)	info on Rv3187/-
Rv1946c/lppG	(cc=0.5426)	info on Rv1946c/lppG
Rv3475/-	(cc=0.5423)	info on Rv3475/-
Rv1369c/-	(cc=0.5335)	info on Rv1369c/-
Rv3326/-	(cc=0.5281)	info on Rv3326/-
Rv0526/-	(cc=0.5269)	info on Rv0526/-
Rv1764/-	(cc=0.5265)	info on Rv1764/-

Correlation of Rv2673/aftC with Rv1972/-

Normalized LFCs for Rv2673/aftC:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv2673/aftC	Rv1972/-
Fe_supp_jason_reseq	-0.508	0.822
low_pH_jason_reseq	-0.201	-0.676
NO_jason_reseq	-0.483	-0.459
B6_jason_reseq	-1.314	-0.601
MHCII_jason_reseq	-1.292	-1.054
Isoniazid02	0.135	1.574
Rifampicin4	0.0	0.728
Ethambutol3	-0.251	-0.126
Meropenem3	-0.12	-0.447
Vancomycin16	0.0	0.562
Rv2680_day32	0.0	-0.529
H37Rv_KO_MarP	-0.313	-0.687
hypoxia_3wks	-0.371	-0.762
hypoxia_6wks	0.0	0.543
glycerol	-0.353	-0.394
cholesterol	-0.398	-0.016
AJ	0.0	-0.272
Bibs02	0.273	0.719
Bibs02c	0.0	-1.814
BL6	0.351	0.548
BL6a	0.154	1.062
BXD01	0.365	0.599
BXD010	0.099	1.571
BXD011	0.817	2.117
BXD03	0.536	2.022
BXD04	0.185	1.329
BXD05	0.292	2.079
BXD06	0.374	1.359
BXD07	0.549	1.548
BXD08	0.527	2.074
BXD09	0.477	1.436
CAST	-0.192	0.357
CCcont	0.749	-0.157
DS01	-0.197	1.086
DS02	-0.38	-0.074
DS04	0.0	1.62
DS0c	0.168	0.272
GP01	-0.271	-0.737
GP02	-0.228	0.302
GP0c	-0.357	0.913
NOD	1.715	1.189
NZO	0.298	-0.737
PWK	0.983	0.395
H37Rv_KO_CtpC	1.582	1.482
H37Rv_KO_CtpD	-0.221	-2.049
H37Rv_KO_Rv1272	0.479	-0.256
H37Rv_KO_SugABC	0.497	0.94
H37Rv_KO_MbtN	0.0	2.058
Trans05	1.5	1.302
macrophage_unactivated	-1.016	-0.085
IL1	-0.219	0.291
Rapamycin	-0.718	1.501
Tcell	-0.762	-0.14
GMCSF	-0.401	1.497
IFNab	-0.46	1.094
IFNg	0.54	0.583
IFNg_GMCSF1	0.434	0.77
Rv1432_day32	0.391	0.166
Rv1565c_day32	0.0	0.72
secA2_input	-0.366	-0.889
delta_Rv3594	0.119	0.333
delta_Rv3717	-0.103	0.688
delta_Rv3811	-0.122	0.23
delta_Rv0954	0.101	-0.027
PonA1	-0.675	0.388
EccD1_KO	1.365	1.589
EspI_KO	0.918	0.436
PE35_KO	1.467	2.293
PPE68_KO	1.872	1.997
glycerol2	-0.914	-1.344
lignocerate	-0.634	-0.407
oleate	-1.754	-1.092
phosphatidylcholine	-0.913	-0.934
acetate	-1.453	-0.721
glucAc	-0.605	-0.549
Rv0950ko	0.0	1.306
Rv1096ko	0.706	0.757
Rv3684ko	0.0	0.229
delta_otsA_trehalose	0.329	0.058