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 Rv1215c/-

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

	Rv2303c/-	Rv1215c/-
Fe_supp_jason_reseq	-0.186	-0.272
low_pH_jason_reseq	0.269	0.11
NO_jason_reseq	0.0	0.339
B6_jason_reseq	0.047	-0.613
MHCII_jason_reseq	0.088	-1.388
Isoniazid02	0.111	0.755
Rifampicin4	-0.195	0.441
Ethambutol3	0.507	2.03
Meropenem3	0.864	0.919
Vancomycin16	0.0	0.276
Rv2680_day32	0.163	0.171
H37Rv_KO_MarP	0.134	0.334
hypoxia_3wks	0.439	0.622
hypoxia_6wks	0.23	0.0
glycerol	0.452	-0.127
cholesterol	0.196	0.069
AJ	0.355	0.536
Bibs02	-0.176	-0.399
Bibs02c	-0.056	-0.488
BL6	0.37	0.418
BL6a	0.076	0.141
BXD01	0.184	0.339
BXD010	0.136	0.527
BXD011	0.401	1.165
BXD03	-0.036	0.172
BXD04	0.896	0.158
BXD05	0.786	0.27
BXD06	0.447	0.515
BXD07	0.476	0.25
BXD08	0.101	0.743
BXD09	0.215	0.53
CAST	0.245	0.509
CCcont	0.019	0.054
DS01	0.121	0.058
DS02	-0.306	0.323
DS04	0.394	0.093
DS0c	0.014	0.079
GP01	0.242	0.529
GP02	0.977	1.583
GP0c	0.067	0.077
NOD	0.74	-0.172
NZO	0.977	0.98
PWK	0.429	0.117
H37Rv_KO_CtpC	0.768	0.721
H37Rv_KO_CtpD	0.523	0.5
H37Rv_KO_Rv1272	0.563	0.837
H37Rv_KO_SugABC	0.293	-0.024
H37Rv_KO_MbtN	0.825	0.297
Trans05	0.981	0.601
macrophage_unactivated	-0.638	-0.186
IL1	-0.839	-0.264
Rapamycin	0.114	-0.181
Tcell	0.391	0.14
GMCSF	-0.401	-0.037
IFNab	-0.587	0.088
IFNg	-0.596	-0.238
IFNg_GMCSF1	-0.544	-0.632
Rv1432_day32	0.27	1.285
Rv1565c_day32	-0.178	0.092
secA2_input	-0.088	-0.604
delta_Rv3594	0.543	-0.194
delta_Rv3717	-0.115	-0.932
delta_Rv3811	-0.497	-0.598
delta_Rv0954	-0.512	-0.872
PonA1	0.495	-0.016
EccD1_KO	1.243	0.457
EspI_KO	0.924	0.311
PE35_KO	0.613	0.405
PPE68_KO	0.56	0.253
glycerol2	-0.167	-0.031
lignocerate	-0.46	-0.054
oleate	-0.139	0.593
phosphatidylcholine	-0.38	0.539
acetate	-0.08	-0.409
glucAc	-0.328	-0.644
Rv0950ko	0.066	-0.347
Rv1096ko	-0.718	0.042
Rv3684ko	0.026	-0.331
delta_otsA_trehalose	0.098	-0.673