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 Rv3528c/-

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

	Rv2277c/-	Rv3528c/-
Fe_supp_jason_reseq	0.137	0.838
low_pH_jason_reseq	-0.905	-0.607
NO_jason_reseq	-0.079	0.137
B6_jason_reseq	0.757	0.547
MHCII_jason_reseq	0.47	0.445
Isoniazid02	0.426	-0.068
Rifampicin4	-0.412	0.0
Ethambutol3	-0.259	-0.449
Meropenem3	-0.044	-0.442
Vancomycin16	0.321	0.353
Rv2680_day32	0.776	-0.186
H37Rv_KO_MarP	0.574	-0.054
hypoxia_3wks	-0.331	-0.833
hypoxia_6wks	-0.265	0.967
glycerol	-0.417	0.102
cholesterol	-0.192	-0.652
AJ	-0.15	1.356
Bibs02	-0.848	0.956
Bibs02c	0.064	0.812
BL6	-0.611	0.97
BL6a	0.09	2.408
BXD01	0.816	1.562
BXD010	0.334	1.676
BXD011	-0.125	1.705
BXD03	0.268	2.078
BXD04	0.056	1.619
BXD05	-0.064	2.306
BXD06	0.365	1.881
BXD07	0.717	2.076
BXD08	0.701	1.617
BXD09	0.349	1.922
CAST	0.07	0.117
CCcont	0.155	1.492
DS01	-0.152	0.551
DS02	-0.665	1.459
DS04	-0.899	1.248
DS0c	-0.035	-0.809
GP01	-0.016	1.216
GP02	-0.448	-0.141
GP0c	-1.395	0.0
NOD	-0.734	-0.12
NZO	-0.449	-0.465
PWK	0.759	0.615
H37Rv_KO_CtpC	-0.603	2.026
H37Rv_KO_CtpD	0.582	0.662
H37Rv_KO_Rv1272	-0.291	2.217
H37Rv_KO_SugABC	1.029	1.188
H37Rv_KO_MbtN	0.847	1.632
Trans05	0.403	0.725
macrophage_unactivated	0.114	0.89
IL1	-0.516	0.243
Rapamycin	-0.23	0.0
Tcell	0.508	0.762
GMCSF	-0.048	0.145
IFNab	0.109	-0.088
IFNg	0.144	0.754
IFNg_GMCSF1	-0.613	-0.273
Rv1432_day32	-0.562	-0.168
Rv1565c_day32	0.663	-0.357
secA2_input	-0.834	0.377
delta_Rv3594	0.139	0.731
delta_Rv3717	-0.896	-0.135
delta_Rv3811	-0.057	0.219
delta_Rv0954	-0.731	-0.211
PonA1	0.063	-0.645
EccD1_KO	-1.424	-1.085
EspI_KO	-0.719	-0.713
PE35_KO	-0.379	-0.403
PPE68_KO	-0.806	-0.326
glycerol2	0.119	0.598
lignocerate	-0.149	1.391
oleate	0.411	0.136
phosphatidylcholine	0.438	0.933
acetate	0.339	0.999
glucAc	0.57	1.377
Rv0950ko	-0.859	0.742
Rv1096ko	-1.601	0.48
Rv3684ko	-0.445	0.318
delta_otsA_trehalose	-1.577	-1.179