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 Rv0858c/dapC:

update plot	correlation	link to info on gene
Rv3522/ltp4	(cc=0.4924)	info on Rv3522/ltp4
Rv0650/-	(cc=0.4666)	info on Rv0650/-
Rv1961/-	(cc=0.4557)	info on Rv1961/-
Rv0134/ephF	(cc=0.4531)	info on Rv0134/ephF
Rv0789c/-	(cc=0.4493)	info on Rv0789c/-
Rv0261c/narK3	(cc=0.448)	info on Rv0261c/narK3
Rv0969/ctpV	(cc=0.4446)	info on Rv0969/ctpV
Rv0811c/-	(cc=0.4377)	info on Rv0811c/-
Rv1993c/-	(cc=0.4333)	info on Rv1993c/-
Rv1329c/dinG	(cc=0.4285)	info on Rv1329c/dinG

Correlation of Rv0858c/dapC with Rv3522/ltp4

Normalized LFCs for Rv0858c/dapC:
(description and provenance of datasets)

	Rv0858c/dapC	Rv3522/ltp4
Fe_supp_jason_reseq	-0.704	-0.17
low_pH_jason_reseq	-0.611	-0.097
NO_jason_reseq	-0.249	0.289
B6_jason_reseq	-0.034	-0.446
MHCII_jason_reseq	0.309	0.866
Isoniazid02	0.418	-0.511
Rifampicin4	0.471	-0.068
Ethambutol3	-0.049	0.068
Meropenem3	0.344	0.159
Vancomycin16	0.761	-0.202
Rv2680_day32	-0.636	-1.285
H37Rv_KO_MarP	0.172	0.134
hypoxia_3wks	0.638	-0.678
hypoxia_6wks	0.171	-0.046
glycerol	0.202	-0.508
cholesterol	0.014	-0.439
AJ	0.25	-0.682
Bibs02	0.0	-0.203
Bibs02c	0.039	0.546
BL6	0.157	-0.62
BL6a	0.198	0.495
BXD01	0.012	-0.163
BXD010	0.182	0.202
BXD011	-0.359	-0.208
BXD03	-0.12	0.433
BXD04	0.176	-0.385
BXD05	0.145	0.476
BXD06	0.386	-0.009
BXD07	0.161	0.31
BXD08	-0.133	-0.081
BXD09	0.513	-0.451
CAST	-0.404	-0.759
CCcont	0.237	0.114
DS01	0.698	-0.315
DS02	0.38	-0.493
DS04	1.02	0.818
DS0c	-0.063	0.097
GP01	0.491	0.451
GP02	0.675	0.793
GP0c	0.966	0.565
NOD	-0.021	-0.952
NZO	0.795	0.14
PWK	-0.301	-0.013
H37Rv_KO_CtpC	0.647	-1.024
H37Rv_KO_CtpD	-0.618	-0.537
H37Rv_KO_Rv1272	0.366	0.576
H37Rv_KO_SugABC	0.593	0.481
H37Rv_KO_MbtN	-0.828	-0.285
Trans05	0.909	-0.145
macrophage_unactivated	0.114	-0.436
IL1	0.415	-0.86
Rapamycin	-0.037	-0.276
Tcell	-0.039	-0.036
GMCSF	-0.066	0.114
IFNab	0.62	0.033
IFNg	0.489	-0.433
IFNg_GMCSF1	1.027	0.427
Rv1432_day32	0.231	-0.353
Rv1565c_day32	0.698	0.829
secA2_input	0.637	0.845
delta_Rv3594	-0.217	-1.196
delta_Rv3717	-0.097	-0.95
delta_Rv3811	-0.617	-0.761
delta_Rv0954	0.167	-0.509
PonA1	0.492	-0.233
EccD1_KO	0.569	-0.194
EspI_KO	-0.442	0.046
PE35_KO	-0.531	-0.569
PPE68_KO	0.077	-0.595
glycerol2	0.524	0.947
lignocerate	0.951	1.382
oleate	-0.485	0.0
phosphatidylcholine	0.847	1.098
acetate	0.542	1.273
glucAc	0.925	0.994
Rv0950ko	0.482	1.055
Rv1096ko	1.677	0.651
Rv3684ko	1.385	0.707
delta_otsA_trehalose	0.286	0.066