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 Rv2308/-

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

	Rv3165c/-	Rv2308/-
Fe_supp_jason_reseq	1.427	0.702
low_pH_jason_reseq	0.151	-0.744
NO_jason_reseq	-1.394	-0.407
B6_jason_reseq	0.333	0.621
MHCII_jason_reseq	0.308	-0.272
Isoniazid02	-0.295	-0.925
Rifampicin4	-0.309	0.412
Ethambutol3	-0.652	-0.624
Meropenem3	0.024	-0.353
Vancomycin16	0.027	-0.332
Rv2680_day32	2.941	0.79
H37Rv_KO_MarP	0.684	-0.035
hypoxia_3wks	-0.327	-0.144
hypoxia_6wks	-0.503	-0.823
glycerol	0.718	-1.22
cholesterol	-0.506	-0.363
AJ	0.128	0.02
Bibs02	-0.603	-0.025
Bibs02c	-1.291	0.009
BL6	-0.342	0.099
BL6a	0.161	0.165
BXD01	0.173	-1.147
BXD010	1.189	0.296
BXD011	0.478	-0.042
BXD03	0.706	-0.277
BXD04	0.913	-0.017
BXD05	-0.249	0.355
BXD06	0.829	-0.209
BXD07	0.687	-0.269
BXD08	0.143	-0.237
BXD09	0.486	0.099
CAST	0.305	-0.075
CCcont	0.661	0.233
DS01	-0.32	-0.212
DS02	-2.757	-0.009
DS04	-1.577	-0.263
DS0c	-0.715	-0.328
GP01	-0.715	-0.421
GP02	-1.448	-0.444
GP0c	-0.98	-0.318
NOD	-0.199	-0.304
NZO	0.564	0.319
PWK	0.159	0.467
H37Rv_KO_CtpC	-0.567	-0.171
H37Rv_KO_CtpD	1.921	0.891
H37Rv_KO_Rv1272	-0.082	-0.033
H37Rv_KO_SugABC	-0.562	-0.559
H37Rv_KO_MbtN	0.877	0.555
Trans05	1.323	0.596
macrophage_unactivated	1.266	0.672
IL1	1.023	0.131
Rapamycin	0.657	0.233
Tcell	0.896	-0.518
GMCSF	1.766	0.298
IFNab	0.686	0.526
IFNg	1.406	0.516
IFNg_GMCSF1	0.0	0.437
Rv1432_day32	-1.042	0.016
Rv1565c_day32	1.567	-0.471
secA2_input	0.18	-0.941
delta_Rv3594	-0.529	-0.093
delta_Rv3717	-0.062	0.096
delta_Rv3811	0.568	0.291
delta_Rv0954	-1.112	-0.665
PonA1	-1.602	0.338
EccD1_KO	0.414	0.069
EspI_KO	1.198	0.165
PE35_KO	0.84	0.403
PPE68_KO	0.771	0.186
glycerol2	0.717	0.989
lignocerate	1.492	1.419
oleate	-3.549	-0.166
phosphatidylcholine	0.378	0.989
acetate	1.197	0.786
glucAc	1.646	1.334
Rv0950ko	0.265	0.241
Rv1096ko	0.09	-0.51
Rv3684ko	-0.049	0.0
delta_otsA_trehalose	0.111	0.958