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 Rv0094c/-

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

	Rv1587c/-	Rv0094c/-
Fe_supp_jason_reseq	-0.292	-0.431
low_pH_jason_reseq	-0.253	-0.013
NO_jason_reseq	0.26	0.0
B6_jason_reseq	0.172	0.199
MHCII_jason_reseq	0.352	-0.228
Isoniazid02	0.201	0.316
Rifampicin4	0.0	0.422
Ethambutol3	0.485	0.568
Meropenem3	1.945	0.949
Vancomycin16	-0.069	0.061
Rv2680_day32	-0.18	-0.505
H37Rv_KO_MarP	-0.135	-0.011
hypoxia_3wks	0.044	-0.231
hypoxia_6wks	-0.583	-0.768
glycerol	-1.005	-0.961
cholesterol	-0.17	-0.591
AJ	0.607	0.788
Bibs02	0.264	0.445
Bibs02c	-0.106	0.444
BL6	0.71	0.039
BL6a	0.198	0.627
BXD01	-0.162	0.057
BXD010	0.572	0.658
BXD011	0.759	-0.084
BXD03	-0.009	0.52
BXD04	0.415	0.687
BXD05	0.286	0.229
BXD06	0.133	0.074
BXD07	0.138	0.358
BXD08	0.36	0.129
BXD09	-0.017	0.053
CAST	0.332	0.465
CCcont	-0.521	-0.236
DS01	0.25	0.501
DS02	0.651	0.748
DS04	0.616	0.55
DS0c	0.786	0.404
GP01	0.51	0.66
GP02	0.794	0.822
GP0c	0.229	0.652
NOD	-0.143	-0.527
NZO	0.808	0.516
PWK	0.71	0.629
H37Rv_KO_CtpC	-0.459	0.491
H37Rv_KO_CtpD	0.287	-0.074
H37Rv_KO_Rv1272	-0.803	-0.037
H37Rv_KO_SugABC	-1.055	-0.544
H37Rv_KO_MbtN	-0.444	-0.364
Trans05	-0.075	0.587
macrophage_unactivated	-0.533	-0.909
IL1	-0.347	-0.211
Rapamycin	-0.485	-0.629
Tcell	-0.906	-1.297
GMCSF	-0.446	-1.019
IFNab	-1.125	-0.68
IFNg	0.195	-0.601
IFNg_GMCSF1	-0.305	-0.138
Rv1432_day32	2.374	-0.167
Rv1565c_day32	0.022	0.109
secA2_input	-0.596	0.49
delta_Rv3594	0.658	0.073
delta_Rv3717	-0.115	-0.323
delta_Rv3811	0.573	-0.015
delta_Rv0954	0.937	0.76
PonA1	0.099	0.088
EccD1_KO	0.141	0.612
EspI_KO	-0.573	0.0
PE35_KO	-0.265	0.026
PPE68_KO	-0.07	-0.154
glycerol2	-0.687	-1.12
lignocerate	-0.505	-0.921
oleate	-0.43	-1.014
phosphatidylcholine	-0.562	-0.982
acetate	-0.073	0.427
glucAc	-0.167	0.042
Rv0950ko	0.615	-0.096
Rv1096ko	0.615	0.676
Rv3684ko	0.704	0.0
delta_otsA_trehalose	-0.018	0.372