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 Rv0114/gmhB

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

	Rv1985c/-	Rv0114/gmhB
Fe_supp_jason_reseq	-0.137	0.718
low_pH_jason_reseq	-0.944	-0.632
NO_jason_reseq	0.11	1.271
B6_jason_reseq	-0.292	0.594
MHCII_jason_reseq	0.107	0.439
Isoniazid02	0.391	-0.051
Rifampicin4	0.336	-0.046
Ethambutol3	0.454	-0.129
Meropenem3	1.809	1.923
Vancomycin16	0.08	0.409
Rv2680_day32	-0.109	0.962
H37Rv_KO_MarP	0.041	0.069
hypoxia_3wks	-0.231	-0.73
hypoxia_6wks	0.117	-0.079
glycerol	0.023	-0.762
cholesterol	-0.959	-0.144
AJ	-0.287	0.849
Bibs02	0.513	0.188
Bibs02c	-0.415	1.173
BL6	0.316	1.019
BL6a	-0.095	1.633
BXD01	-0.161	0.578
BXD010	0.101	0.796
BXD011	0.885	2.605
BXD03	0.199	1.583
BXD04	-0.219	1.206
BXD05	0.106	0.811
BXD06	-0.097	1.011
BXD07	0.524	1.313
BXD08	-0.728	0.994
BXD09	0.269	0.777
CAST	-0.425	0.566
CCcont	-0.244	0.79
DS01	-0.537	0.503
DS02	-1.085	0.487
DS04	-1.2	1.088
DS0c	-0.984	0.544
GP01	-0.475	0.688
GP02	-0.05	0.101
GP0c	-0.625	0.118
NOD	0.272	1.526
NZO	-0.588	0.457
PWK	0.078	0.128
H37Rv_KO_CtpC	0.334	0.805
H37Rv_KO_CtpD	0.903	2.513
H37Rv_KO_Rv1272	0.632	1.842
H37Rv_KO_SugABC	-0.331	2.029
H37Rv_KO_MbtN	1.092	0.753
Trans05	0.86	1.298
macrophage_unactivated	0.47	0.508
IL1	-0.208	-0.4
Rapamycin	0.402	0.313
Tcell	-0.323	0.772
GMCSF	-0.074	1.648
IFNab	-0.345	0.671
IFNg	0.804	0.214
IFNg_GMCSF1	-1.197	0.198
Rv1432_day32	0.78	0.435
Rv1565c_day32	-1.652	-2.3
secA2_input	-0.996	-0.822
delta_Rv3594	-0.598	0.176
delta_Rv3717	-0.56	0.841
delta_Rv3811	-0.854	-0.052
delta_Rv0954	-0.133	0.863
PonA1	-0.646	-0.166
EccD1_KO	0.02	0.115
EspI_KO	-0.488	0.083
PE35_KO	0.0	0.344
PPE68_KO	-0.141	0.429
glycerol2	-0.021	1.023
lignocerate	-0.462	1.24
oleate	0.329	0.119
phosphatidylcholine	-0.031	1.042
acetate	-0.153	0.853
glucAc	-0.827	0.887
Rv0950ko	0.519	1.269
Rv1096ko	0.181	0.145
Rv3684ko	0.088	0.881
delta_otsA_trehalose	0.259	-0.281