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 Rv2660c/-:

update plot	correlation	link to info on gene
Rv0601c/-	(cc=0.6105)	info on Rv0601c/-
Rv0318c/-	(cc=0.542)	info on Rv0318c/-
Rv2532c/-	(cc=0.5241)	info on Rv2532c/-
Rv0319/pcp	(cc=0.5009)	info on Rv0319/pcp
Rv0789c/-	(cc=0.4955)	info on Rv0789c/-
Rv1162/narH	(cc=0.4696)	info on Rv1162/narH
Rv2919c/glnB	(cc=0.4636)	info on Rv2919c/glnB
Rv2802c/-	(cc=0.4483)	info on Rv2802c/-
Rv3534c/hsaF	(cc=0.4433)	info on Rv3534c/hsaF
Rv2813/-	(cc=0.4366)	info on Rv2813/-

Correlation of Rv2660c/- with Rv2813/-

Normalized LFCs for Rv2660c/-:
(description and provenance of datasets)

	Rv2660c/-	Rv2813/-
Fe_supp_jason_reseq	0.349	0.747
low_pH_jason_reseq	0.815	-0.43
NO_jason_reseq	0.725	-1.735
B6_jason_reseq	0.689	-0.733
MHCII_jason_reseq	1.056	-0.396
Isoniazid02	0.631	0.054
Rifampicin4	0.157	0.1
Ethambutol3	-0.36	-0.474
Meropenem3	0.707	-0.724
Vancomycin16	1.295	0.292
Rv2680_day32	0.054	-0.423
H37Rv_KO_MarP	0.539	0.796
hypoxia_3wks	-0.845	-0.159
hypoxia_6wks	-1.848	-1.566
glycerol	-0.434	1.164
cholesterol	0.064	0.835
AJ	0.123	0.299
Bibs02	0.842	-0.517
Bibs02c	0.664	0.0
BL6	-1.031	0.575
BL6a	-0.298	-0.422
BXD01	-0.552	0.552
BXD010	-0.199	-0.072
BXD011	-0.347	0.63
BXD03	-0.384	0.998
BXD04	-0.575	-0.305
BXD05	-0.154	0.269
BXD06	0.018	0.438
BXD07	0.205	0.637
BXD08	-1.164	0.139
BXD09	0.446	0.81
CAST	0.823	0.707
CCcont	-0.041	0.997
DS01	0.125	0.725
DS02	0.777	0.714
DS04	0.256	0.474
DS0c	-0.905	0.058
GP01	-1.688	-1.378
GP02	-1.641	-1.078
GP0c	-1.222	-1.263
NOD	-0.303	3.207
NZO	0.793	0.487
PWK	-0.466	0.794
H37Rv_KO_CtpC	-0.007	0.169
H37Rv_KO_CtpD	-3.62	-0.85
H37Rv_KO_Rv1272	-1.054	-0.74
H37Rv_KO_SugABC	-0.348	0.152
H37Rv_KO_MbtN	-1.142	-1.242
Trans05	0.228	-0.074
macrophage_unactivated	3.156	1.411
IL1	1.783	0.632
Rapamycin	0.832	1.145
Tcell	0.052	2.379
GMCSF	0.85	0.985
IFNab	0.118	0.81
IFNg	-0.192	2.157
IFNg_GMCSF1	1.031	0.842
Rv1432_day32	0.343	0.321
Rv1565c_day32	-0.855	1.03
secA2_input	0.96	0.2
delta_Rv3594	-1.447	1.216
delta_Rv3717	0.184	0.938
delta_Rv3811	0.992	-0.269
delta_Rv0954	0.177	0.207
PonA1	1.222	1.027
EccD1_KO	0.398	1.868
EspI_KO	-0.299	1.218
PE35_KO	0.108	1.657
PPE68_KO	-0.56	2.326
glycerol2	1.289	2.058
lignocerate	2.166	2.828
oleate	-0.233	-0.163
phosphatidylcholine	1.608	2.417
acetate	2.13	4.234
glucAc	1.334	3.129
Rv0950ko	-0.326	-0.175
Rv1096ko	-1.264	1.056
Rv3684ko	-0.835	-0.806
delta_otsA_trehalose	0.128	0.15