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 Rv1703c/-:

update plot	correlation	link to info on gene
Rv3322c/-	(cc=0.4862)	info on Rv3322c/-
Rv3749c/-	(cc=0.4839)	info on Rv3749c/-
Rv1356c/-	(cc=0.4417)	info on Rv1356c/-
Rv3407/vapB47	(cc=0.4409)	info on Rv3407/vapB47
Rv2253/-	(cc=0.4393)	info on Rv2253/-
Rv3697c/vapC48	(cc=0.4335)	info on Rv3697c/vapC48
Rv2287/yjcE	(cc=0.4193)	info on Rv2287/yjcE
Rv0182c/sigG	(cc=0.4169)	info on Rv0182c/sigG
Rv1531/-	(cc=0.4109)	info on Rv1531/-
Rv2424c/-	(cc=0.4089)	info on Rv2424c/-

Correlation of Rv1703c/- with Rv3697c/vapC48

Normalized LFCs for Rv1703c/-:
(description and provenance of datasets)

	Rv1703c/-	Rv3697c/vapC48
Fe_supp_jason_reseq	0.107	1.004
low_pH_jason_reseq	-0.709	0.248
NO_jason_reseq	0.381	0.257
B6_jason_reseq	0.215	0.432
MHCII_jason_reseq	0.726	0.625
Isoniazid02	0.179	0.127
Rifampicin4	0.046	0.986
Ethambutol3	0.143	0.259
Meropenem3	0.689	0.623
Vancomycin16	0.093	0.849
Rv2680_day32	-0.843	-0.608
H37Rv_KO_MarP	-0.161	0.141
hypoxia_3wks	-0.048	-0.187
hypoxia_6wks	-0.357	0.599
glycerol	-0.556	-1.059
cholesterol	0.183	-0.18
AJ	0.496	1.141
Bibs02	0.51	0.148
Bibs02c	-0.064	1.023
BL6	0.876	0.43
BL6a	0.092	0.946
BXD01	0.342	1.006
BXD010	0.054	0.63
BXD011	-0.051	0.497
BXD03	0.085	0.265
BXD04	0.0	0.173
BXD05	0.154	0.037
BXD06	0.017	0.352
BXD07	-0.151	0.319
BXD08	0.163	0.723
BXD09	0.024	0.615
CAST	0.41	0.929
CCcont	0.503	0.578
DS01	0.262	0.7
DS02	0.232	1.311
DS04	-0.059	0.926
DS0c	0.778	1.073
GP01	0.301	0.32
GP02	0.234	1.123
GP0c	0.645	0.655
NOD	0.317	1.15
NZO	0.811	0.351
PWK	-0.196	1.223
H37Rv_KO_CtpC	-0.162	1.453
H37Rv_KO_CtpD	0.923	0.915
H37Rv_KO_Rv1272	0.317	-0.06
H37Rv_KO_SugABC	0.276	1.48
H37Rv_KO_MbtN	-0.85	0.337
Trans05	0.841	1.053
macrophage_unactivated	0.129	-0.675
IL1	-0.448	-1.053
Rapamycin	-0.911	-1.789
Tcell	0.769	-0.534
GMCSF	-0.745	-1.595
IFNab	-0.357	-0.98
IFNg	-0.112	-0.676
IFNg_GMCSF1	-1.024	-1.254
Rv1432_day32	1.047	-1.395
Rv1565c_day32	0.731	0.684
secA2_input	-0.249	-0.368
delta_Rv3594	-0.295	0.021
delta_Rv3717	-0.701	-0.279
delta_Rv3811	-0.498	-0.042
delta_Rv0954	-0.536	-0.239
PonA1	0.119	-0.059
EccD1_KO	-0.069	-0.576
EspI_KO	0.733	0.02
PE35_KO	0.718	-0.257
PPE68_KO	0.787	-0.307
glycerol2	0.476	0.743
lignocerate	0.554	1.221
oleate	0.352	0.95
phosphatidylcholine	0.665	1.308
acetate	-0.236	0.329
glucAc	-0.196	0.432
Rv0950ko	0.395	1.077
Rv1096ko	-0.283	0.033
Rv3684ko	0.445	0.701
delta_otsA_trehalose	-0.066	-0.143