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 Rv3656c/-:

update plot	correlation	link to info on gene
Rv1604/impA	(cc=0.5376)	info on Rv1604/impA
Rv1583c/-	(cc=0.493)	info on Rv1583c/-
Rv3819/-	(cc=0.4831)	info on Rv3819/-
Rv2253/-	(cc=0.4715)	info on Rv2253/-
Rv2689c/-	(cc=0.4707)	info on Rv2689c/-
Rv3470c/ilvB2	(cc=0.4619)	info on Rv3470c/ilvB2
Rv0698/-	(cc=0.4599)	info on Rv0698/-
Rv2665/-	(cc=0.4531)	info on Rv2665/-
Rv1366/-	(cc=0.4479)	info on Rv1366/-
Rv3904c/esxE	(cc=0.4475)	info on Rv3904c/esxE

Correlation of Rv3656c/- with Rv1583c/-

Normalized LFCs for Rv3656c/-:
(description and provenance of datasets)

	Rv3656c/-	Rv1583c/-
Fe_supp_jason_reseq	-1.424	0.515
low_pH_jason_reseq	-0.294	1.549
NO_jason_reseq	-1.179	0.832
B6_jason_reseq	-3.075	-2.401
MHCII_jason_reseq	-0.951	-1.772
Isoniazid02	-0.317	0.789
Rifampicin4	0.374	1.18
Ethambutol3	-0.128	0.676
Meropenem3	-0.182	-0.246
Vancomycin16	0.26	0.324
Rv2680_day32	-0.461	-1.26
H37Rv_KO_MarP	0.099	0.107
hypoxia_3wks	-0.443	-0.977
hypoxia_6wks	-1.006	0.672
glycerol	-0.094	0.0
cholesterol	-0.102	-0.46
AJ	0.684	-1.071
Bibs02	-0.416	-0.991
Bibs02c	-0.252	0.743
BL6	1.337	3.191
BL6a	0.0	1.936
BXD01	1.029	1.298
BXD010	0.581	1.592
BXD011	0.736	2.091
BXD03	0.445	2.033
BXD04	-0.117	1.324
BXD05	0.225	1.302
BXD06	0.0	1.925
BXD07	1.109	2.073
BXD08	0.392	1.806
BXD09	0.18	1.625
CAST	0.976	0.736
CCcont	1.844	2.504
DS01	0.441	0.962
DS02	-0.101	0.054
DS04	0.991	1.612
DS0c	-2.696	-1.798
GP01	0.448	1.857
GP02	-0.316	1.808
GP0c	0.531	2.036
NOD	-0.387	0.797
NZO	4.004	0.673
PWK	0.612	-0.905
H37Rv_KO_CtpC	0.072	1.404
H37Rv_KO_CtpD	1.582	3.186
H37Rv_KO_Rv1272	-0.535	0.795
H37Rv_KO_SugABC	-0.763	1.851
H37Rv_KO_MbtN	0.046	0.987
Trans05	-0.539	1.01
macrophage_unactivated	0.369	0.559
IL1	-1.172	0.0
Rapamycin	-1.05	0.862
Tcell	-0.342	0.469
GMCSF	-0.517	0.805
IFNab	-0.662	-0.115
IFNg	-0.649	1.219
IFNg_GMCSF1	-1.411	0.537
Rv1432_day32	0.343	1.454
Rv1565c_day32	0.377	0.526
secA2_input	-0.421	-0.227
delta_Rv3594	-1.473	-1.637
delta_Rv3717	-1.013	-0.945
delta_Rv3811	-0.207	-0.448
delta_Rv0954	-0.916	-0.472
PonA1	0.166	-0.396
EccD1_KO	-0.638	2.088
EspI_KO	0.034	1.141
PE35_KO	0.172	1.523
PPE68_KO	0.618	1.638
glycerol2	0.465	1.813
lignocerate	1.137	2.527
oleate	-0.167	-2.562
phosphatidylcholine	0.604	1.909
acetate	0.509	2.818
glucAc	2.591	2.145
Rv0950ko	0.458	0.826
Rv1096ko	0.805	-1.197
Rv3684ko	0.616	-1.251
delta_otsA_trehalose	0.629	0.204