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 Rv1767/-:

update plot	correlation	link to info on gene
Rv1035c/-	(cc=0.5114)	info on Rv1035c/-
Rv0150c/-	(cc=0.4518)	info on Rv0150c/-
Rv2585c/-	(cc=0.4245)	info on Rv2585c/-
Rv2591/PE_PGRS44	(cc=0.4242)	info on Rv2591/PE_PGRS44
Rv1961/-	(cc=0.4109)	info on Rv1961/-
Rv1951c/-	(cc=0.4085)	info on Rv1951c/-
Rv1214c/PE14	(cc=0.4049)	info on Rv1214c/PE14
Rv2730/-	(cc=0.3979)	info on Rv2730/-
Rv2801c/mazF9	(cc=0.3967)	info on Rv2801c/mazF9
Rv3170/aofH	(cc=0.3783)	info on Rv3170/aofH

Correlation of Rv1767/- with Rv2730/-

Normalized LFCs for Rv1767/-:
(description and provenance of datasets)

	Rv1767/-	Rv2730/-
Fe_supp_jason_reseq	0.039	-0.497
low_pH_jason_reseq	-0.979	-0.304
NO_jason_reseq	0.528	-0.113
B6_jason_reseq	-0.67	-1.853
MHCII_jason_reseq	-0.553	-0.93
Isoniazid02	0.207	-0.499
Rifampicin4	0.236	-0.514
Ethambutol3	0.753	0.636
Meropenem3	0.035	-1.533
Vancomycin16	-0.162	-1.011
Rv2680_day32	-0.363	1.433
H37Rv_KO_MarP	0.113	0.645
hypoxia_3wks	-0.881	-0.981
hypoxia_6wks	-0.912	-0.28
glycerol	0.949	0.38
cholesterol	-0.57	0.392
AJ	0.499	0.287
Bibs02	1.48	0.592
Bibs02c	-0.383	0.344
BL6	0.832	0.77
BL6a	0.426	0.997
BXD01	-0.108	0.404
BXD010	0.465	0.517
BXD011	1.117	1.284
BXD03	0.071	0.797
BXD04	-0.033	0.732
BXD05	0.602	1.264
BXD06	0.167	0.822
BXD07	0.394	1.492
BXD08	-0.258	0.755
BXD09	-0.051	0.843
CAST	0.496	0.434
CCcont	-0.53	0.344
DS01	-0.587	0.351
DS02	0.706	0.682
DS04	0.101	0.319
DS0c	-1.216	0.68
GP01	0.268	0.536
GP02	2.154	0.106
GP0c	1.155	0.059
NOD	0.368	0.517
NZO	0.737	0.11
PWK	-0.2	-0.213
H37Rv_KO_CtpC	-0.315	1.034
H37Rv_KO_CtpD	-0.117	0.063
H37Rv_KO_Rv1272	0.748	0.551
H37Rv_KO_SugABC	-0.054	1.139
H37Rv_KO_MbtN	-0.019	0.337
Trans05	0.592	1.448
macrophage_unactivated	0.385	-0.426
IL1	-0.558	-0.077
Rapamycin	-0.184	-0.872
Tcell	-0.723	-0.701
GMCSF	0.026	-0.016
IFNab	-0.339	-0.375
IFNg	-0.535	-0.516
IFNg_GMCSF1	0.06	-0.239
Rv1432_day32	0.383	1.087
Rv1565c_day32	1.232	-0.032
secA2_input	-2.855	-0.888
delta_Rv3594	1.638	0.823
delta_Rv3717	1.457	0.622
delta_Rv3811	2.045	0.773
delta_Rv0954	1.659	1.071
PonA1	-0.95	0.855
EccD1_KO	0.109	-0.418
EspI_KO	1.56	0.22
PE35_KO	-0.516	0.015
PPE68_KO	0.07	0.189
glycerol2	-1.211	-1.013
lignocerate	-0.408	-0.51
oleate	-0.498	-1.165
phosphatidylcholine	-0.424	-0.311
acetate	0.166	-0.249
glucAc	-0.416	-0.028
Rv0950ko	0.694	0.651
Rv1096ko	0.477	-0.118
Rv3684ko	1.945	-0.203
delta_otsA_trehalose	-0.994	-0.107