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 Rv1073/-

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

	Rv2884/-	Rv1073/-
Fe_supp_jason_reseq	-0.466	0.698
low_pH_jason_reseq	0.294	-0.09
NO_jason_reseq	-1.483	0.357
B6_jason_reseq	0.101	0.616
MHCII_jason_reseq	0.356	0.156
Isoniazid02	0.796	-0.514
Rifampicin4	-0.717	-0.493
Ethambutol3	0.393	-0.375
Meropenem3	-0.113	0.551
Vancomycin16	-0.515	-0.602
Rv2680_day32	-0.151	-0.121
H37Rv_KO_MarP	-0.666	-0.238
hypoxia_3wks	-0.319	0.423
hypoxia_6wks	-0.094	0.522
glycerol	0.057	-0.344
cholesterol	-0.684	-0.173
AJ	-0.682	-0.476
Bibs02	0.229	0.754
Bibs02c	0.209	0.186
BL6	-0.859	0.376
BL6a	0.346	0.247
BXD01	0.248	0.128
BXD010	-0.531	0.246
BXD011	0.359	0.46
BXD03	0.672	-0.074
BXD04	-0.274	-0.114
BXD05	-0.191	0.058
BXD06	-0.265	0.184
BXD07	-0.407	0.571
BXD08	0.555	0.261
BXD09	0.375	0.276
CAST	0.169	0.227
CCcont	-0.043	0.113
DS01	0.067	-0.118
DS02	0.414	-0.395
DS04	-0.523	0.396
DS0c	0.0	0.074
GP01	1.34	1.222
GP02	0.693	0.326
GP0c	0.639	0.603
NOD	0.532	0.732
NZO	-0.178	0.178
PWK	0.279	-0.038
H37Rv_KO_CtpC	-0.015	0.53
H37Rv_KO_CtpD	-1.213	0.509
H37Rv_KO_Rv1272	2.348	0.259
H37Rv_KO_SugABC	0.107	1.275
H37Rv_KO_MbtN	1.712	1.271
Trans05	1.374	1.424
macrophage_unactivated	-0.363	-0.464
IL1	0.0	0.219
Rapamycin	-0.353	-0.313
Tcell	0.567	-0.059
GMCSF	0.657	-0.708
IFNab	0.254	-0.178
IFNg	-0.885	-0.224
IFNg_GMCSF1	-0.157	-0.057
Rv1432_day32	-0.222	0.137
Rv1565c_day32	-0.828	-1.377
secA2_input	-0.538	-0.479
delta_Rv3594	0.089	0.109
delta_Rv3717	-0.24	-0.132
delta_Rv3811	-0.516	-0.156
delta_Rv0954	-0.262	-0.525
PonA1	-0.538	-0.63
EccD1_KO	0.342	0.556
EspI_KO	0.684	1.141
PE35_KO	1.333	1.698
PPE68_KO	1.872	1.619
glycerol2	0.077	0.715
lignocerate	-0.267	0.452
oleate	0.391	0.635
phosphatidylcholine	0.464	0.562
acetate	-0.364	0.176
glucAc	-0.944	-0.041
Rv0950ko	-0.422	0.283
Rv1096ko	-0.685	-0.588
Rv3684ko	-0.033	0.308
delta_otsA_trehalose	-0.427	1.023