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 Rv2277c/-:

update plot	correlation	link to info on gene
Rv1917c/PPE34	(cc=0.4558)	info on Rv1917c/PPE34
Rv1501/-	(cc=0.4073)	info on Rv1501/-
Rv3667/acs	(cc=0.4038)	info on Rv3667/acs
Rv1550/fadD11	(cc=0.4036)	info on Rv1550/fadD11
Rv1892/-	(cc=0.3983)	info on Rv1892/-
Rv2544/lppB	(cc=0.3978)	info on Rv2544/lppB
Rv3858c/gltD	(cc=0.3973)	info on Rv3858c/gltD
Rv0059/-	(cc=0.3947)	info on Rv0059/-
Rv3528c/-	(cc=0.3861)	info on Rv3528c/-
Rv2256c/-	(cc=0.386)	info on Rv2256c/-

Correlation of Rv2277c/- with Rv2256c/-

Normalized LFCs for Rv2277c/-:
(description and provenance of datasets)

	Rv2277c/-	Rv2256c/-
Fe_supp_jason_reseq	0.137	0.0
low_pH_jason_reseq	-0.905	0.0
NO_jason_reseq	-0.079	0.0
B6_jason_reseq	0.757	0.0
MHCII_jason_reseq	0.47	0.0
Isoniazid02	0.426	0.383
Rifampicin4	-0.412	0.0
Ethambutol3	-0.259	0.0
Meropenem3	-0.044	0.0
Vancomycin16	0.321	0.0
Rv2680_day32	0.776	0.989
H37Rv_KO_MarP	0.574	-3.746
hypoxia_3wks	-0.331	0.0
hypoxia_6wks	-0.265	0.0
glycerol	-0.417	0.0
cholesterol	-0.192	0.0
AJ	-0.15	0.0
Bibs02	-0.848	0.0
Bibs02c	0.064	0.0
BL6	-0.611	0.0
BL6a	0.09	0.0
BXD01	0.816	0.0
BXD010	0.334	0.0
BXD011	-0.125	0.243
BXD03	0.268	0.0
BXD04	0.056	0.0
BXD05	-0.064	0.0
BXD06	0.365	0.0
BXD07	0.717	0.0
BXD08	0.701	0.0
BXD09	0.349	0.0
CAST	0.07	0.0
CCcont	0.155	1.157
DS01	-0.152	0.0
DS02	-0.665	0.0
DS04	-0.899	0.533
DS0c	-0.035	0.0
GP01	-0.016	0.0
GP02	-0.448	0.0
GP0c	-1.395	0.0
NOD	-0.734	0.0
NZO	-0.449	0.0
PWK	0.759	0.0
H37Rv_KO_CtpC	-0.603	0.0
H37Rv_KO_CtpD	0.582	0.0
H37Rv_KO_Rv1272	-0.291	0.0
H37Rv_KO_SugABC	1.029	0.0
H37Rv_KO_MbtN	0.847	0.196
Trans05	0.403	0.0
macrophage_unactivated	0.114	0.0
IL1	-0.516	0.0
Rapamycin	-0.23	0.0
Tcell	0.508	0.0
GMCSF	-0.048	0.0
IFNab	0.109	0.0
IFNg	0.144	0.0
IFNg_GMCSF1	-0.613	0.0
Rv1432_day32	-0.562	0.18
Rv1565c_day32	0.663	0.218
secA2_input	-0.834	0.964
delta_Rv3594	0.139	1.53
delta_Rv3717	-0.896	-0.174
delta_Rv3811	-0.057	0.358
delta_Rv0954	-0.731	-0.178
PonA1	0.063	-0.159
EccD1_KO	-1.424	-4.502
EspI_KO	-0.719	-3.576
PE35_KO	-0.379	0.744
PPE68_KO	-0.806	-0.47
glycerol2	0.119	0.193
lignocerate	-0.149	0.0
oleate	0.411	0.196
phosphatidylcholine	0.438	0.0
acetate	0.339	0.0
glucAc	0.57	0.0
Rv0950ko	-0.859	-5.497
Rv1096ko	-1.601	-4.596
Rv3684ko	-0.445	-4.434
delta_otsA_trehalose	-1.577	-1.95