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 Rv2274A/mazE8:

update plot	correlation	link to info on gene
Rv2275/-	(cc=0.7556)	info on Rv2275/-
Rv0845/-	(cc=0.5504)	info on Rv0845/-
Rv1397c/vapC10	(cc=0.5373)	info on Rv1397c/vapC10
Rv2137c/-	(cc=0.5213)	info on Rv2137c/-
Rv3398c/idsA1	(cc=0.5212)	info on Rv3398c/idsA1
Rv1729c/-	(cc=0.5188)	info on Rv1729c/-
Rv1507c/-	(cc=0.5139)	info on Rv1507c/-
Rv1521/fadD25	(cc=0.4752)	info on Rv1521/fadD25
Rv2496c/bkdB	(cc=0.4711)	info on Rv2496c/bkdB
Rv2527/vapC17	(cc=0.4648)	info on Rv2527/vapC17

Correlation of Rv2274A/mazE8 with Rv2137c/-

Normalized LFCs for Rv2274A/mazE8:
(description and provenance of datasets)

	Rv2274A/mazE8	Rv2137c/-
Fe_supp_jason_reseq	-1.073	0.605
low_pH_jason_reseq	0.408	0.341
NO_jason_reseq	0.457	0.081
B6_jason_reseq	-0.58	0.371
MHCII_jason_reseq	-0.18	-0.073
Isoniazid02	0.377	1.323
Rifampicin4	1.083	0.179
Ethambutol3	0.043	0.45
Meropenem3	0.238	0.155
Vancomycin16	0.581	-0.316
Rv2680_day32	0.359	0.256
H37Rv_KO_MarP	0.26	-0.119
hypoxia_3wks	-0.048	-0.821
hypoxia_6wks	0.048	-0.512
glycerol	-1.419	-1.684
cholesterol	-1.219	0.329
AJ	0.382	0.511
Bibs02	2.072	0.523
Bibs02c	-2.099	0.243
BL6	0.275	0.51
BL6a	0.765	1.091
BXD01	1.466	1.24
BXD010	0.109	0.957
BXD011	1.765	0.047
BXD03	0.769	0.213
BXD04	0.811	0.363
BXD05	1.881	0.013
BXD06	0.952	0.619
BXD07	1.15	0.511
BXD08	2.183	0.473
BXD09	1.695	0.5
CAST	-1.246	-0.452
CCcont	0.729	0.48
DS01	1.018	0.792
DS02	1.827	-0.214
DS04	1.668	1.788
DS0c	0.591	0.8
GP01	-0.935	0.063
GP02	-1.187	-1.23
GP0c	-0.61	-1.568
NOD	-0.903	0.443
NZO	0.543	0.513
PWK	-2.342	0.0
H37Rv_KO_CtpC	1.727	0.599
H37Rv_KO_CtpD	0.769	-0.417
H37Rv_KO_Rv1272	2.315	1.31
H37Rv_KO_SugABC	3.786	1.703
H37Rv_KO_MbtN	2.954	0.871
Trans05	1.811	-0.17
macrophage_unactivated	1.398	0.436
IL1	1.353	2.011
Rapamycin	2.157	1.449
Tcell	1.743	2.597
GMCSF	1.888	-0.562
IFNab	0.426	0.054
IFNg	0.997	0.54
IFNg_GMCSF1	-0.556	-0.606
Rv1432_day32	-0.426	-0.683
Rv1565c_day32	-0.382	0.0
secA2_input	-1.035	-0.645
delta_Rv3594	-1.263	-0.087
delta_Rv3717	-1.195	-0.495
delta_Rv3811	-1.88	-0.32
delta_Rv0954	-1.616	0.216
PonA1	-1.255	0.675
EccD1_KO	1.756	0.178
EspI_KO	0.228	0.0
PE35_KO	0.563	0.709
PPE68_KO	1.126	1.229
glycerol2	-0.076	0.413
lignocerate	-0.359	0.658
oleate	-0.227	-0.086
phosphatidylcholine	0.426	0.807
acetate	-0.474	-0.843
glucAc	-0.524	-0.366
Rv0950ko	-0.1	-0.302
Rv1096ko	0.253	-0.552
Rv3684ko	0.409	0.239
delta_otsA_trehalose	-1.615	-0.627