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 Rv2665/-

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

	Rv3656c/-	Rv2665/-
Fe_supp_jason_reseq	-1.424	-0.783
low_pH_jason_reseq	-0.294	-0.597
NO_jason_reseq	-1.179	-0.473
B6_jason_reseq	-3.075	-1.301
MHCII_jason_reseq	-0.951	-0.097
Isoniazid02	-0.317	-0.368
Rifampicin4	0.374	0.487
Ethambutol3	-0.128	0.272
Meropenem3	-0.182	1.252
Vancomycin16	0.26	0.525
Rv2680_day32	-0.461	1.145
H37Rv_KO_MarP	0.099	0.799
hypoxia_3wks	-0.443	0.415
hypoxia_6wks	-1.006	0.238
glycerol	-0.094	-0.039
cholesterol	-0.102	0.147
AJ	0.684	1.331
Bibs02	-0.416	0.727
Bibs02c	-0.252	0.94
BL6	1.337	1.076
BL6a	0.0	0.914
BXD01	1.029	0.695
BXD010	0.581	0.818
BXD011	0.736	0.695
BXD03	0.445	1.396
BXD04	-0.117	0.675
BXD05	0.225	1.803
BXD06	0.0	0.992
BXD07	1.109	0.913
BXD08	0.392	1.145
BXD09	0.18	1.296
CAST	0.976	0.692
CCcont	1.844	0.643
DS01	0.441	0.38
DS02	-0.101	0.589
DS04	0.991	1.047
DS0c	-2.696	0.905
GP01	0.448	0.468
GP02	-0.316	-0.328
GP0c	0.531	0.293
NOD	-0.387	0.343
NZO	4.004	1.783
PWK	0.612	0.755
H37Rv_KO_CtpC	0.072	1.472
H37Rv_KO_CtpD	1.582	2.181
H37Rv_KO_Rv1272	-0.535	-0.174
H37Rv_KO_SugABC	-0.763	0.494
H37Rv_KO_MbtN	0.046	-0.01
Trans05	-0.539	0.038
macrophage_unactivated	0.369	0.249
IL1	-1.172	-0.721
Rapamycin	-1.05	-1.157
Tcell	-0.342	-0.978
GMCSF	-0.517	-0.317
IFNab	-0.662	-0.453
IFNg	-0.649	-0.203
IFNg_GMCSF1	-1.411	-1.442
Rv1432_day32	0.343	-0.139
Rv1565c_day32	0.377	0.453
secA2_input	-0.421	0.268
delta_Rv3594	-1.473	-0.249
delta_Rv3717	-1.013	-0.274
delta_Rv3811	-0.207	-0.98
delta_Rv0954	-0.916	-0.142
PonA1	0.166	0.817
EccD1_KO	-0.638	-0.036
EspI_KO	0.034	-0.665
PE35_KO	0.172	-0.755
PPE68_KO	0.618	0.202
glycerol2	0.465	-0.353
lignocerate	1.137	-0.069
oleate	-0.167	0.187
phosphatidylcholine	0.604	-0.161
acetate	0.509	0.076
glucAc	2.591	-0.379
Rv0950ko	0.458	0.199
Rv1096ko	0.805	0.329
Rv3684ko	0.616	-0.111
delta_otsA_trehalose	0.629	-1.481