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 Rv1708/-:

update plot	correlation	link to info on gene
Rv0089/-	(cc=0.6734)	info on Rv0089/-
Rv1182/papA3	(cc=0.6641)	info on Rv1182/papA3
Rv1180/pks3	(cc=0.6578)	info on Rv1180/pks3
Rv3354/-	(cc=0.6542)	info on Rv3354/-
Rv1974/-	(cc=0.6526)	info on Rv1974/-
Rv2028c/-	(cc=0.6484)	info on Rv2028c/-
Rv0914c/-	(cc=0.6481)	info on Rv0914c/-
Rv1032c/trcS	(cc=0.6361)	info on Rv1032c/trcS
Rv0570/nrdZ	(cc=0.6206)	info on Rv0570/nrdZ
Rv1999c/-	(cc=0.6153)	info on Rv1999c/-

Correlation of Rv1708/- with Rv0089/-

Normalized LFCs for Rv1708/-:
(description and provenance of datasets)

	Rv1708/-	Rv0089/-
Fe_supp_jason_reseq	0.415	-0.617
low_pH_jason_reseq	0.231	-0.221
NO_jason_reseq	0.362	0.047
B6_jason_reseq	1.59	0.241
MHCII_jason_reseq	1.501	0.487
Isoniazid02	0.0	0.877
Rifampicin4	-0.341	-0.701
Ethambutol3	0.14	-0.483
Meropenem3	-0.151	-0.564
Vancomycin16	-0.334	0.0
Rv2680_day32	0.078	1.554
H37Rv_KO_MarP	0.313	1.943
hypoxia_3wks	-0.427	-0.59
hypoxia_6wks	-0.727	-0.699
glycerol	-0.607	-1.188
cholesterol	-0.246	-0.61
AJ	-0.866	0.069
Bibs02	-0.55	0.098
Bibs02c	-0.941	0.0
BL6	-0.906	-1.724
BL6a	-1.435	-1.411
BXD01	-0.695	-1.681
BXD010	-0.928	-1.478
BXD011	-0.923	-1.727
BXD03	-0.98	-1.397
BXD04	-0.896	-0.973
BXD05	-0.975	-1.529
BXD06	-0.967	-1.642
BXD07	-1.003	-2.006
BXD08	-0.963	-2.382
BXD09	-1.018	-1.596
CAST	-0.859	0.492
CCcont	-1.082	-0.977
DS01	0.346	-0.209
DS02	0.922	0.153
DS04	0.284	0.462
DS0c	0.596	0.308
GP01	-0.715	0.326
GP02	-0.603	-1.336
GP0c	-0.585	-0.489
NOD	-0.381	0.145
NZO	-0.6	-0.1
PWK	0.099	0.389
H37Rv_KO_CtpC	-1.014	-1.138
H37Rv_KO_CtpD	-0.918	-3.064
H37Rv_KO_Rv1272	-1.022	-0.742
H37Rv_KO_SugABC	-0.529	-0.481
H37Rv_KO_MbtN	-0.644	-1.571
Trans05	-0.144	0.008
macrophage_unactivated	-0.83	-2.727
IL1	-0.78	-1.246
Rapamycin	-0.807	-2.071
Tcell	-0.857	-1.3
GMCSF	-0.694	-1.848
IFNab	-0.795	-2.524
IFNg	-0.703	-1.871
IFNg_GMCSF1	-0.396	-0.936
Rv1432_day32	0.0	0.301
Rv1565c_day32	0.0	0.594
secA2_input	-0.377	-1.028
delta_Rv3594	-0.315	0.0
delta_Rv3717	0.331	-0.216
delta_Rv3811	0.918	0.755
delta_Rv0954	-0.756	0.442
PonA1	-0.516	-0.308
EccD1_KO	0.73	-0.118
EspI_KO	1.435	1.221
PE35_KO	0.335	0.204
PPE68_KO	0.368	1.497
glycerol2	0.338	1.494
lignocerate	0.0	1.736
oleate	0.179	-0.505
phosphatidylcholine	0.176	1.304
acetate	0.743	2.168
glucAc	-0.143	1.508
Rv0950ko	-0.669	-0.169
Rv1096ko	0.302	0.983
Rv3684ko	0.632	1.019
delta_otsA_trehalose	0.654	1.304