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 Rv1985c/-:

update plot	correlation	link to info on gene
Rv3382c/lytB1	(cc=0.4515)	info on Rv3382c/lytB1
Rv1980c/mpt64	(cc=0.4358)	info on Rv1980c/mpt64
Rv1191/-	(cc=0.4336)	info on Rv1191/-
Rv0114/gmhB	(cc=0.4313)	info on Rv0114/gmhB
Rv1790/PPE27	(cc=0.4289)	info on Rv1790/PPE27
Rv3826/fadD23	(cc=0.4225)	info on Rv3826/fadD23
Rv3430c/-	(cc=0.4213)	info on Rv3430c/-
Rv1816/-	(cc=0.4175)	info on Rv1816/-
Rv0149/-	(cc=0.4062)	info on Rv0149/-
Rv3857c/-	(cc=0.3998)	info on Rv3857c/-

Correlation of Rv1985c/- with Rv0149/-

Normalized LFCs for Rv1985c/-:
(description and provenance of datasets)

	Rv1985c/-	Rv0149/-
Fe_supp_jason_reseq	-0.137	0.456
low_pH_jason_reseq	-0.944	-0.174
NO_jason_reseq	0.11	0.344
B6_jason_reseq	-0.292	-0.072
MHCII_jason_reseq	0.107	-0.111
Isoniazid02	0.391	0.46
Rifampicin4	0.336	0.463
Ethambutol3	0.454	1.317
Meropenem3	1.809	2.06
Vancomycin16	0.08	0.406
Rv2680_day32	-0.109	0.49
H37Rv_KO_MarP	0.041	0.593
hypoxia_3wks	-0.231	0.152
hypoxia_6wks	0.117	-0.027
glycerol	0.023	-0.278
cholesterol	-0.959	-0.034
AJ	-0.287	0.576
Bibs02	0.513	0.282
Bibs02c	-0.415	0.323
BL6	0.316	1.501
BL6a	-0.095	0.651
BXD01	-0.161	0.846
BXD010	0.101	0.984
BXD011	0.885	1.073
BXD03	0.199	0.429
BXD04	-0.219	0.999
BXD05	0.106	1.11
BXD06	-0.097	1.007
BXD07	0.524	0.966
BXD08	-0.728	0.815
BXD09	0.269	0.913
CAST	-0.425	0.2
CCcont	-0.244	0.804
DS01	-0.537	-0.017
DS02	-1.085	0.065
DS04	-1.2	0.458
DS0c	-0.984	0.512
GP01	-0.475	0.708
GP02	-0.05	0.843
GP0c	-0.625	0.413
NOD	0.272	-0.877
NZO	-0.588	0.422
PWK	0.078	0.072
H37Rv_KO_CtpC	0.334	0.96
H37Rv_KO_CtpD	0.903	0.992
H37Rv_KO_Rv1272	0.632	0.772
H37Rv_KO_SugABC	-0.331	0.68
H37Rv_KO_MbtN	1.092	0.467
Trans05	0.86	0.547
macrophage_unactivated	0.47	0.413
IL1	-0.208	0.181
Rapamycin	0.402	0.144
Tcell	-0.323	0.218
GMCSF	-0.074	0.665
IFNab	-0.345	0.846
IFNg	0.804	0.5
IFNg_GMCSF1	-1.197	0.663
Rv1432_day32	0.78	1.199
Rv1565c_day32	-1.652	-0.464
secA2_input	-0.996	-0.587
delta_Rv3594	-0.598	0.06
delta_Rv3717	-0.56	0.296
delta_Rv3811	-0.854	-0.152
delta_Rv0954	-0.133	0.388
PonA1	-0.646	0.067
EccD1_KO	0.02	-0.388
EspI_KO	-0.488	0.26
PE35_KO	0.0	0.283
PPE68_KO	-0.141	-0.022
glycerol2	-0.021	-0.66
lignocerate	-0.462	-0.524
oleate	0.329	-0.24
phosphatidylcholine	-0.031	-1.006
acetate	-0.153	-1.112
glucAc	-0.827	-0.999
Rv0950ko	0.519	-0.024
Rv1096ko	0.181	-0.268
Rv3684ko	0.088	-0.265
delta_otsA_trehalose	0.259	0.749