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 Rv3776/-:

update plot	correlation	link to info on gene
Rv2414c/-	(cc=0.4834)	info on Rv2414c/-
Rv3665c/dppB	(cc=0.4675)	info on Rv3665c/dppB
Rv1177/fdxC	(cc=0.4484)	info on Rv1177/fdxC
Rv2693c/-	(cc=0.4458)	info on Rv2693c/-
Rv2149c/yfiH	(cc=0.4366)	info on Rv2149c/yfiH
Rv2265/-	(cc=0.4215)	info on Rv2265/-
Rv0836c/-	(cc=0.4204)	info on Rv0836c/-
Rv3440c/-	(cc=0.414)	info on Rv3440c/-
Rv1944c/-	(cc=0.4056)	info on Rv1944c/-
Rv0209/-	(cc=0.4034)	info on Rv0209/-

Correlation of Rv3776/- with Rv2149c/yfiH

Normalized LFCs for Rv3776/-:
(description and provenance of datasets)

	Rv3776/-	Rv2149c/yfiH
Fe_supp_jason_reseq	-0.406	0.098
low_pH_jason_reseq	1.193	-0.432
NO_jason_reseq	0.034	-0.704
B6_jason_reseq	-0.219	-2.143
MHCII_jason_reseq	-0.207	-1.184
Isoniazid02	0.655	0.105
Rifampicin4	-0.255	-1.616
Ethambutol3	1.284	2.805
Meropenem3	-0.35	-0.153
Vancomycin16	-0.186	-0.791
Rv2680_day32	0.307	-0.651
H37Rv_KO_MarP	0.316	1.166
hypoxia_3wks	-0.271	-0.845
hypoxia_6wks	-0.468	-2.326
glycerol	0.12	-1.091
cholesterol	-0.169	-0.621
AJ	0.282	0.18
Bibs02	0.642	0.661
Bibs02c	0.67	1.429
BL6	0.355	-1.424
BL6a	0.263	1.146
BXD01	0.235	-0.64
BXD010	-0.444	-1.151
BXD011	-0.327	-1.341
BXD03	-0.009	-1.216
BXD04	0.503	-0.512
BXD05	-0.042	-0.284
BXD06	-0.213	-1.2
BXD07	-0.182	-1.312
BXD08	0.198	-1.728
BXD09	-0.339	-1.297
CAST	0.404	-0.219
CCcont	0.173	-0.077
DS01	0.438	1.353
DS02	0.912	0.818
DS04	0.485	0.169
DS0c	0.625	1.505
GP01	0.849	0.285
GP02	1.226	0.277
GP0c	0.624	0.47
NOD	0.867	0.506
NZO	0.221	0.155
PWK	0.139	-1.196
H37Rv_KO_CtpC	0.351	0.016
H37Rv_KO_CtpD	0.406	1.021
H37Rv_KO_Rv1272	-0.244	0.283
H37Rv_KO_SugABC	0.436	-0.623
H37Rv_KO_MbtN	1.29	-0.338
Trans05	0.187	0.262
macrophage_unactivated	-0.139	0.0
IL1	0.273	-0.602
Rapamycin	0.331	-0.074
Tcell	0.14	-0.573
GMCSF	0.024	-0.681
IFNab	0.051	0.602
IFNg	-0.069	-1.927
IFNg_GMCSF1	0.239	1.172
Rv1432_day32	0.716	0.447
Rv1565c_day32	0.46	0.0
secA2_input	0.668	-0.382
delta_Rv3594	-0.541	1.0
delta_Rv3717	-0.22	0.081
delta_Rv3811	-0.541	-0.272
delta_Rv0954	-0.052	0.399
PonA1	-0.172	-0.597
EccD1_KO	-0.247	0.039
EspI_KO	-0.764	0.271
PE35_KO	-0.26	-0.578
PPE68_KO	-0.397	-0.544
glycerol2	0.182	0.339
lignocerate	0.274	0.718
oleate	0.133	0.384
phosphatidylcholine	0.22	1.532
acetate	0.126	-0.401
glucAc	0.059	-0.963
Rv0950ko	0.419	0.419
Rv1096ko	0.127	-0.235
Rv3684ko	0.219	-0.344
delta_otsA_trehalose	-1.085	-0.311