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 Rv1587c/-:

update plot	correlation	link to info on gene
Rv0094c/-	(cc=0.6032)	info on Rv0094c/-
Rv3467/-	(cc=0.5797)	info on Rv3467/-
Rv3186/-	(cc=0.5318)	info on Rv3186/-
Rv0578c/PE_PGRS7	(cc=0.5028)	info on Rv0578c/PE_PGRS7
Rv1763/-	(cc=0.4954)	info on Rv1763/-
Rv0402c/mmpL1	(cc=0.4907)	info on Rv0402c/mmpL1
Rv2585c/-	(cc=0.4886)	info on Rv2585c/-
Rv1586c/-	(cc=0.4869)	info on Rv1586c/-
Rv3367/PE_PGRS51	(cc=0.4764)	info on Rv3367/PE_PGRS51
Rv3325/-	(cc=0.4756)	info on Rv3325/-

Correlation of Rv1587c/- with Rv2585c/-

Normalized LFCs for Rv1587c/-:
(description and provenance of datasets)

	Rv1587c/-	Rv2585c/-
Fe_supp_jason_reseq	-0.292	0.229
low_pH_jason_reseq	-0.253	-1.047
NO_jason_reseq	0.26	-0.798
B6_jason_reseq	0.172	0.492
MHCII_jason_reseq	0.352	0.212
Isoniazid02	0.201	0.028
Rifampicin4	0.0	0.615
Ethambutol3	0.485	0.924
Meropenem3	1.945	0.945
Vancomycin16	-0.069	0.127
Rv2680_day32	-0.18	0.151
H37Rv_KO_MarP	-0.135	-0.913
hypoxia_3wks	0.044	-0.514
hypoxia_6wks	-0.583	-0.505
glycerol	-1.005	-0.092
cholesterol	-0.17	0.846
AJ	0.607	0.519
Bibs02	0.264	0.616
Bibs02c	-0.106	0.358
BL6	0.71	0.356
BL6a	0.198	0.505
BXD01	-0.162	0.008
BXD010	0.572	0.812
BXD011	0.759	0.672
BXD03	-0.009	0.487
BXD04	0.415	0.17
BXD05	0.286	0.746
BXD06	0.133	0.481
BXD07	0.138	0.367
BXD08	0.36	0.305
BXD09	-0.017	0.441
CAST	0.332	0.143
CCcont	-0.521	-0.558
DS01	0.25	0.217
DS02	0.651	0.109
DS04	0.616	0.617
DS0c	0.786	-0.099
GP01	0.51	0.3
GP02	0.794	0.091
GP0c	0.229	-0.276
NOD	-0.143	0.628
NZO	0.808	0.298
PWK	0.71	1.131
H37Rv_KO_CtpC	-0.459	-1.125
H37Rv_KO_CtpD	0.287	-0.715
H37Rv_KO_Rv1272	-0.803	-0.278
H37Rv_KO_SugABC	-1.055	0.296
H37Rv_KO_MbtN	-0.444	0.583
Trans05	-0.075	0.476
macrophage_unactivated	-0.533	0.316
IL1	-0.347	-0.374
Rapamycin	-0.485	-0.246
Tcell	-0.906	-0.632
GMCSF	-0.446	1.17
IFNab	-1.125	0.351
IFNg	0.195	0.436
IFNg_GMCSF1	-0.305	1.144
Rv1432_day32	2.374	1.643
Rv1565c_day32	0.022	0.433
secA2_input	-0.596	-0.719
delta_Rv3594	0.658	0.805
delta_Rv3717	-0.115	0.75
delta_Rv3811	0.573	0.516
delta_Rv0954	0.937	0.185
PonA1	0.099	0.369
EccD1_KO	0.141	0.628
EspI_KO	-0.573	0.408
PE35_KO	-0.265	-0.327
PPE68_KO	-0.07	0.067
glycerol2	-0.687	-0.342
lignocerate	-0.505	-0.704
oleate	-0.43	0.312
phosphatidylcholine	-0.562	-0.668
acetate	-0.073	-0.432
glucAc	-0.167	-0.641
Rv0950ko	0.615	0.576
Rv1096ko	0.615	1.27
Rv3684ko	0.704	1.238
delta_otsA_trehalose	-0.018	-0.21