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 Rv2884/-:

update plot	correlation	link to info on gene
Rv1073/-	(cc=0.4757)	info on Rv1073/-
Rv2881c/cdsA	(cc=0.4711)	info on Rv2881c/cdsA
Rv2819c/-	(cc=0.4686)	info on Rv2819c/-
Rv2774c/-	(cc=0.4581)	info on Rv2774c/-
Rv0760c/-	(cc=0.444)	info on Rv0760c/-
Rv2570/-	(cc=0.4419)	info on Rv2570/-
Rv2269c/-	(cc=0.4365)	info on Rv2269c/-
Rv1354c/-	(cc=0.4246)	info on Rv1354c/-
Rv2810c/-	(cc=0.4222)	info on Rv2810c/-
Rv2847c/cysG	(cc=0.4123)	info on Rv2847c/cysG

Correlation of Rv2884/- with Rv2269c/-

Normalized LFCs for Rv2884/-:
(description and provenance of datasets)

	Rv2884/-	Rv2269c/-
Fe_supp_jason_reseq	-0.466	-0.999
low_pH_jason_reseq	0.294	0.766
NO_jason_reseq	-1.483	-0.373
B6_jason_reseq	0.101	-0.527
MHCII_jason_reseq	0.356	-0.244
Isoniazid02	0.796	0.038
Rifampicin4	-0.717	1.194
Ethambutol3	0.393	-0.308
Meropenem3	-0.113	0.09
Vancomycin16	-0.515	0.326
Rv2680_day32	-0.151	1.417
H37Rv_KO_MarP	-0.666	0.116
hypoxia_3wks	-0.319	0.63
hypoxia_6wks	-0.094	-1.109
glycerol	0.057	1.2
cholesterol	-0.684	0.55
AJ	-0.682	-0.156
Bibs02	0.229	0.403
Bibs02c	0.209	-0.497
BL6	-0.859	0.788
BL6a	0.346	-0.595
BXD01	0.248	0.648
BXD010	-0.531	-1.06
BXD011	0.359	-0.694
BXD03	0.672	0.645
BXD04	-0.274	0.222
BXD05	-0.191	-0.697
BXD06	-0.265	0.258
BXD07	-0.407	0.444
BXD08	0.555	0.459
BXD09	0.375	0.111
CAST	0.169	0.567
CCcont	-0.043	0.633
DS01	0.067	0.221
DS02	0.414	0.329
DS04	-0.523	1.883
DS0c	0.0	0.448
GP01	1.34	-0.653
GP02	0.693	-0.409
GP0c	0.639	0.686
NOD	0.532	0.747
NZO	-0.178	-0.316
PWK	0.279	-1.124
H37Rv_KO_CtpC	-0.015	0.461
H37Rv_KO_CtpD	-1.213	-1.755
H37Rv_KO_Rv1272	2.348	1.378
H37Rv_KO_SugABC	0.107	0.376
H37Rv_KO_MbtN	1.712	1.539
Trans05	1.374	2.132
macrophage_unactivated	-0.363	0.439
IL1	0.0	-0.819
Rapamycin	-0.353	0.249
Tcell	0.567	0.635
GMCSF	0.657	0.969
IFNab	0.254	0.245
IFNg	-0.885	-0.946
IFNg_GMCSF1	-0.157	1.153
Rv1432_day32	-0.222	1.014
Rv1565c_day32	-0.828	-0.747
secA2_input	-0.538	-0.853
delta_Rv3594	0.089	-0.477
delta_Rv3717	-0.24	-1.037
delta_Rv3811	-0.516	-1.41
delta_Rv0954	-0.262	-0.36
PonA1	-0.538	-0.563
EccD1_KO	0.342	-0.069
EspI_KO	0.684	1.46
PE35_KO	1.333	0.939
PPE68_KO	1.872	1.241
glycerol2	0.077	0.675
lignocerate	-0.267	0.469
oleate	0.391	0.308
phosphatidylcholine	0.464	0.648
acetate	-0.364	-0.066
glucAc	-0.944	-0.488
Rv0950ko	-0.422	-0.573
Rv1096ko	-0.685	-0.305
Rv3684ko	-0.033	0.596
delta_otsA_trehalose	-0.427	-0.247