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 Rv3325/-

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

	Rv1587c/-	Rv3325/-
Fe_supp_jason_reseq	-0.292	-0.032
low_pH_jason_reseq	-0.253	0.187
NO_jason_reseq	0.26	-0.391
B6_jason_reseq	0.172	0.174
MHCII_jason_reseq	0.352	-0.044
Isoniazid02	0.201	0.211
Rifampicin4	0.0	0.931
Ethambutol3	0.485	1.294
Meropenem3	1.945	-0.095
Vancomycin16	-0.069	0.411
Rv2680_day32	-0.18	-0.624
H37Rv_KO_MarP	-0.135	-0.333
hypoxia_3wks	0.044	0.809
hypoxia_6wks	-0.583	-0.203
glycerol	-1.005	-1.147
cholesterol	-0.17	-0.305
AJ	0.607	1.17
Bibs02	0.264	0.074
Bibs02c	-0.106	0.353
BL6	0.71	-0.304
BL6a	0.198	0.264
BXD01	-0.162	-0.101
BXD010	0.572	0.192
BXD011	0.759	0.178
BXD03	-0.009	0.078
BXD04	0.415	-0.096
BXD05	0.286	0.311
BXD06	0.133	-0.164
BXD07	0.138	0.095
BXD08	0.36	-0.186
BXD09	-0.017	0.196
CAST	0.332	0.532
CCcont	-0.521	-0.363
DS01	0.25	0.37
DS02	0.651	0.509
DS04	0.616	0.119
DS0c	0.786	1.023
GP01	0.51	0.771
GP02	0.794	1.281
GP0c	0.229	0.556
NOD	-0.143	0.083
NZO	0.808	0.964
PWK	0.71	1.069
H37Rv_KO_CtpC	-0.459	0.089
H37Rv_KO_CtpD	0.287	0.114
H37Rv_KO_Rv1272	-0.803	-0.259
H37Rv_KO_SugABC	-1.055	-0.232
H37Rv_KO_MbtN	-0.444	0.67
Trans05	-0.075	0.009
macrophage_unactivated	-0.533	-1.244
IL1	-0.347	-1.21
Rapamycin	-0.485	-0.601
Tcell	-0.906	-0.899
GMCSF	-0.446	-1.188
IFNab	-1.125	-1.11
IFNg	0.195	-1.299
IFNg_GMCSF1	-0.305	-0.578
Rv1432_day32	2.374	1.314
Rv1565c_day32	0.022	-0.311
secA2_input	-0.596	-0.013
delta_Rv3594	0.658	0.45
delta_Rv3717	-0.115	-0.145
delta_Rv3811	0.573	-0.208
delta_Rv0954	0.937	0.324
PonA1	0.099	-0.308
EccD1_KO	0.141	0.237
EspI_KO	-0.573	1.292
PE35_KO	-0.265	1.07
PPE68_KO	-0.07	0.88
glycerol2	-0.687	-0.245
lignocerate	-0.505	-0.184
oleate	-0.43	-0.668
phosphatidylcholine	-0.562	-0.245
acetate	-0.073	1.081
glucAc	-0.167	1.52
Rv0950ko	0.615	0.811
Rv1096ko	0.615	0.534
Rv3684ko	0.704	0.108
delta_otsA_trehalose	-0.018	-0.317