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 Rv1257c/-:

update plot	correlation	link to info on gene
Rv2334/cysK1	(cc=0.4709)	info on Rv2334/cysK1
Rv2335/cysE	(cc=0.4236)	info on Rv2335/cysE
Rv0321/dcd	(cc=0.4208)	info on Rv0321/dcd
Rv1778c/-	(cc=0.4194)	info on Rv1778c/-
Rv1681/moeX	(cc=0.4127)	info on Rv1681/moeX
Rv3466/-	(cc=0.4097)	info on Rv3466/-
Rv0892/-	(cc=0.405)	info on Rv0892/-
Rv0526/-	(cc=0.3951)	info on Rv0526/-
Rv3714c/-	(cc=0.3919)	info on Rv3714c/-
Rv0078/-	(cc=0.3893)	info on Rv0078/-

Correlation of Rv1257c/- with Rv3714c/-

Normalized LFCs for Rv1257c/-:
(description and provenance of datasets)

	Rv1257c/-	Rv3714c/-
Fe_supp_jason_reseq	1.328	-0.398
low_pH_jason_reseq	0.099	-0.363
NO_jason_reseq	1.168	0.011
B6_jason_reseq	0.427	0.719
MHCII_jason_reseq	0.234	1.035
Isoniazid02	1.196	0.778
Rifampicin4	0.179	-0.011
Ethambutol3	1.164	0.55
Meropenem3	-0.125	-0.108
Vancomycin16	0.088	1.387
Rv2680_day32	-0.586	0.488
H37Rv_KO_MarP	0.694	0.169
hypoxia_3wks	0.096	0.49
hypoxia_6wks	0.05	1.184
glycerol	-0.339	-1.508
cholesterol	-0.371	-0.909
AJ	0.047	0.202
Bibs02	-0.518	-0.147
Bibs02c	0.85	0.108
BL6	-0.725	-0.168
BL6a	1.102	-0.013
BXD01	0.6	0.43
BXD010	1.13	0.139
BXD011	0.207	0.21
BXD03	0.471	0.323
BXD04	-0.052	0.597
BXD05	0.041	-0.14
BXD06	0.157	0.267
BXD07	0.309	0.08
BXD08	0.193	0.297
BXD09	-0.153	0.279
CAST	0.205	0.607
CCcont	-0.215	-0.643
DS01	0.527	0.433
DS02	0.485	0.651
DS04	-0.326	1.023
DS0c	0.773	0.638
GP01	-0.393	-0.144
GP02	0.338	0.641
GP0c	0.634	-0.46
NOD	1.604	1.111
NZO	0.377	0.526
PWK	0.266	0.367
H37Rv_KO_CtpC	0.672	-0.288
H37Rv_KO_CtpD	0.051	0.055
H37Rv_KO_Rv1272	-0.272	-1.053
H37Rv_KO_SugABC	0.088	-0.819
H37Rv_KO_MbtN	-1.173	-0.526
Trans05	0.28	-0.625
macrophage_unactivated	-0.073	0.095
IL1	0.483	0.0
Rapamycin	-0.037	-0.19
Tcell	0.147	0.935
GMCSF	-0.092	0.079
IFNab	0.647	-0.333
IFNg	-0.708	-0.029
IFNg_GMCSF1	-0.792	-0.072
Rv1432_day32	-0.321	1.288
Rv1565c_day32	-0.027	0.158
secA2_input	-1.268	0.769
delta_Rv3594	-0.564	-0.971
delta_Rv3717	-0.561	-0.799
delta_Rv3811	-0.76	-1.387
delta_Rv0954	0.0	-1.0
PonA1	-0.155	-0.336
EccD1_KO	-0.043	-0.697
EspI_KO	0.451	-0.371
PE35_KO	0.219	-0.446
PPE68_KO	-0.042	-0.403
glycerol2	-1.149	-0.661
lignocerate	-0.606	-0.621
oleate	-0.922	-0.793
phosphatidylcholine	-0.437	-0.793
acetate	-0.6	-1.614
glucAc	-0.632	-0.741
Rv0950ko	0.371	0.724
Rv1096ko	0.914	0.552
Rv3684ko	0.684	0.196
delta_otsA_trehalose	0.429	0.411