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 Rv2253/-

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

	Rv1703c/-	Rv2253/-
Fe_supp_jason_reseq	0.107	-1.163
low_pH_jason_reseq	-0.709	-0.206
NO_jason_reseq	0.381	-0.475
B6_jason_reseq	0.215	-2.027
MHCII_jason_reseq	0.726	-1.199
Isoniazid02	0.179	-0.095
Rifampicin4	0.046	-0.845
Ethambutol3	0.143	-0.304
Meropenem3	0.689	-0.432
Vancomycin16	0.093	-0.172
Rv2680_day32	-0.843	0.456
H37Rv_KO_MarP	-0.161	-0.167
hypoxia_3wks	-0.048	0.167
hypoxia_6wks	-0.357	-0.867
glycerol	-0.556	-0.903
cholesterol	0.183	-0.807
AJ	0.496	1.758
Bibs02	0.51	0.719
Bibs02c	-0.064	-0.418
BL6	0.876	0.656
BL6a	0.092	-0.626
BXD01	0.342	1.271
BXD010	0.054	0.707
BXD011	-0.051	0.54
BXD03	0.085	0.327
BXD04	0.0	0.407
BXD05	0.154	0.301
BXD06	0.017	0.483
BXD07	-0.151	0.259
BXD08	0.163	1.186
BXD09	0.024	0.462
CAST	0.41	0.102
CCcont	0.503	1.443
DS01	0.262	0.395
DS02	0.232	-0.495
DS04	-0.059	1.269
DS0c	0.778	-0.823
GP01	0.301	-0.119
GP02	0.234	-0.603
GP0c	0.645	-0.333
NOD	0.317	2.791
NZO	0.811	1.305
PWK	-0.196	-0.287
H37Rv_KO_CtpC	-0.162	1.54
H37Rv_KO_CtpD	0.923	1.877
H37Rv_KO_Rv1272	0.317	1.952
H37Rv_KO_SugABC	0.276	1.701
H37Rv_KO_MbtN	-0.85	0.452
Trans05	0.841	2.427
macrophage_unactivated	0.129	0.915
IL1	-0.448	-1.077
Rapamycin	-0.911	-2.829
Tcell	0.769	1.049
GMCSF	-0.745	-2.857
IFNab	-0.357	-0.943
IFNg	-0.112	-0.703
IFNg_GMCSF1	-1.024	-1.141
Rv1432_day32	1.047	1.096
Rv1565c_day32	0.731	0.141
secA2_input	-0.249	-0.366
delta_Rv3594	-0.295	0.445
delta_Rv3717	-0.701	-0.505
delta_Rv3811	-0.498	-0.152
delta_Rv0954	-0.536	-0.668
PonA1	0.119	-0.32
EccD1_KO	-0.069	-0.125
EspI_KO	0.733	0.502
PE35_KO	0.718	0.417
PPE68_KO	0.787	-0.246
glycerol2	0.476	1.26
lignocerate	0.554	1.393
oleate	0.352	0.664
phosphatidylcholine	0.665	1.259
acetate	-0.236	1.413
glucAc	-0.196	0.939
Rv0950ko	0.395	-0.576
Rv1096ko	-0.283	-1.007
Rv3684ko	0.445	-0.626
delta_otsA_trehalose	-0.066	-0.026