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 Rv2303c/-:

update plot	correlation	link to info on gene
Rv2881c/cdsA	(cc=0.549)	info on Rv2881c/cdsA
Rv3184/-	(cc=0.5372)	info on Rv3184/-
Rv1673c/-	(cc=0.5317)	info on Rv1673c/-
Rv2576c/-	(cc=0.5087)	info on Rv2576c/-
Rv1215c/-	(cc=0.5001)	info on Rv1215c/-
Rv2278/-	(cc=0.4905)	info on Rv2278/-
Rv1369c/-	(cc=0.4873)	info on Rv1369c/-
Rv3533c/PPE62	(cc=0.4837)	info on Rv3533c/PPE62
Rv3884c/eccA2	(cc=0.4774)	info on Rv3884c/eccA2
Rv1756c/-	(cc=0.4652)	info on Rv1756c/-

Correlation of Rv2303c/- with Rv1756c/-

Normalized LFCs for Rv2303c/-:
(description and provenance of datasets)

	Rv2303c/-	Rv1756c/-
Fe_supp_jason_reseq	-0.186	-0.357
low_pH_jason_reseq	0.269	-0.494
NO_jason_reseq	0.0	0.362
B6_jason_reseq	0.047	-0.418
MHCII_jason_reseq	0.088	-0.043
Isoniazid02	0.111	-0.102
Rifampicin4	-0.195	0.915
Ethambutol3	0.507	0.465
Meropenem3	0.864	-0.223
Vancomycin16	0.0	-0.239
Rv2680_day32	0.163	0.281
H37Rv_KO_MarP	0.134	-0.199
hypoxia_3wks	0.439	0.471
hypoxia_6wks	0.23	0.067
glycerol	0.452	-0.295
cholesterol	0.196	0.336
AJ	0.355	1.632
Bibs02	-0.176	1.44
Bibs02c	-0.056	1.995
BL6	0.37	0.357
BL6a	0.076	1.422
BXD01	0.184	0.948
BXD010	0.136	1.088
BXD011	0.401	1.055
BXD03	-0.036	1.007
BXD04	0.896	0.786
BXD05	0.786	1.323
BXD06	0.447	0.75
BXD07	0.476	1.036
BXD08	0.101	0.632
BXD09	0.215	1.052
CAST	0.245	1.653
CCcont	0.019	0.279
DS01	0.121	1.261
DS02	-0.306	1.215
DS04	0.394	1.502
DS0c	0.014	1.549
GP01	0.242	1.488
GP02	0.977	1.55
GP0c	0.067	1.012
NOD	0.74	1.565
NZO	0.977	1.376
PWK	0.429	1.582
H37Rv_KO_CtpC	0.768	1.007
H37Rv_KO_CtpD	0.523	1.03
H37Rv_KO_Rv1272	0.563	0.639
H37Rv_KO_SugABC	0.293	0.982
H37Rv_KO_MbtN	0.825	0.821
Trans05	0.981	1.029
macrophage_unactivated	-0.638	-0.821
IL1	-0.839	-0.641
Rapamycin	0.114	-0.77
Tcell	0.391	-1.499
GMCSF	-0.401	-0.393
IFNab	-0.587	-1.094
IFNg	-0.596	-0.556
IFNg_GMCSF1	-0.544	-0.339
Rv1432_day32	0.27	0.587
Rv1565c_day32	-0.178	0.262
secA2_input	-0.088	0.016
delta_Rv3594	0.543	-0.15
delta_Rv3717	-0.115	-0.243
delta_Rv3811	-0.497	-0.201
delta_Rv0954	-0.512	0.544
PonA1	0.495	-0.07
EccD1_KO	1.243	0.661
EspI_KO	0.924	0.858
PE35_KO	0.613	0.645
PPE68_KO	0.56	0.666
glycerol2	-0.167	-1.131
lignocerate	-0.46	-0.884
oleate	-0.139	-1.304
phosphatidylcholine	-0.38	-1.098
acetate	-0.08	-0.239
glucAc	-0.328	0.007
Rv0950ko	0.066	-0.142
Rv1096ko	-0.718	0.115
Rv3684ko	0.026	-0.727
delta_otsA_trehalose	0.098	0.329