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 Rv3165c/-:

update plot	correlation	link to info on gene
Rv2740/ephG	(cc=0.4995)	info on Rv2740/ephG
Rv0769/-	(cc=0.4668)	info on Rv0769/-
Rv0499/-	(cc=0.4548)	info on Rv0499/-
Rv1499/-	(cc=0.4524)	info on Rv1499/-
Rv2308/-	(cc=0.4365)	info on Rv2308/-
Rv2060/-	(cc=0.4245)	info on Rv2060/-
Rv1219c/-	(cc=0.4109)	info on Rv1219c/-
Rv3553/-	(cc=0.4092)	info on Rv3553/-
Rv1082/mca	(cc=0.4085)	info on Rv1082/mca
Rv2437/-	(cc=0.4063)	info on Rv2437/-

Correlation of Rv3165c/- with Rv1219c/-

Normalized LFCs for Rv3165c/-:
(description and provenance of datasets)

	Rv3165c/-	Rv1219c/-
Fe_supp_jason_reseq	1.427	1.178
low_pH_jason_reseq	0.151	-0.997
NO_jason_reseq	-1.394	0.0
B6_jason_reseq	0.333	0.641
MHCII_jason_reseq	0.308	0.293
Isoniazid02	-0.295	0.431
Rifampicin4	-0.309	-0.065
Ethambutol3	-0.652	-0.103
Meropenem3	0.024	-0.307
Vancomycin16	0.027	0.151
Rv2680_day32	2.941	-0.068
H37Rv_KO_MarP	0.684	0.817
hypoxia_3wks	-0.327	-0.156
hypoxia_6wks	-0.503	0.119
glycerol	0.718	-0.372
cholesterol	-0.506	0.341
AJ	0.128	-0.101
Bibs02	-0.603	-1.507
Bibs02c	-1.291	-2.093
BL6	-0.342	0.013
BL6a	0.161	-0.748
BXD01	0.173	-0.705
BXD010	1.189	0.212
BXD011	0.478	0.188
BXD03	0.706	-0.707
BXD04	0.913	-1.171
BXD05	-0.249	0.612
BXD06	0.829	-0.263
BXD07	0.687	0.014
BXD08	0.143	-0.367
BXD09	0.486	-0.207
CAST	0.305	0.254
CCcont	0.661	0.388
DS01	-0.32	0.024
DS02	-2.757	-0.693
DS04	-1.577	-0.333
DS0c	-0.715	-0.63
GP01	-0.715	0.328
GP02	-1.448	-0.879
GP0c	-0.98	-0.027
NOD	-0.199	-0.047
NZO	0.564	-0.909
PWK	0.159	-0.682
H37Rv_KO_CtpC	-0.567	-0.32
H37Rv_KO_CtpD	1.921	0.576
H37Rv_KO_Rv1272	-0.082	-0.092
H37Rv_KO_SugABC	-0.562	-1.345
H37Rv_KO_MbtN	0.877	0.01
Trans05	1.323	0.558
macrophage_unactivated	1.266	0.83
IL1	1.023	1.139
Rapamycin	0.657	0.997
Tcell	0.896	0.645
GMCSF	1.766	-0.206
IFNab	0.686	0.756
IFNg	1.406	0.198
IFNg_GMCSF1	0.0	0.707
Rv1432_day32	-1.042	0.378
Rv1565c_day32	1.567	0.63
secA2_input	0.18	0.992
delta_Rv3594	-0.529	-1.505
delta_Rv3717	-0.062	0.472
delta_Rv3811	0.568	-0.358
delta_Rv0954	-1.112	-0.194
PonA1	-1.602	-0.694
EccD1_KO	0.414	-0.25
EspI_KO	1.198	0.59
PE35_KO	0.84	0.169
PPE68_KO	0.771	0.0
glycerol2	0.717	-0.929
lignocerate	1.492	-0.302
oleate	-3.549	-1.67
phosphatidylcholine	0.378	-0.224
acetate	1.197	-0.352
glucAc	1.646	0.361
Rv0950ko	0.265	0.507
Rv1096ko	0.09	0.841
Rv3684ko	-0.049	1.372
delta_otsA_trehalose	0.111	0.759