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 Rv1468c/PE_PGRS29:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv2205c/-	(cc=0.5487)	info on Rv2205c/-
Rv3344c/PE_PGRS49	(cc=0.4809)	info on Rv3344c/PE_PGRS49
Rv1840c/PE_PGRS34	(cc=0.4791)	info on Rv1840c/PE_PGRS34
Rv3892c/PPE69	(cc=0.4789)	info on Rv3892c/PPE69
Rv1004c/-	(cc=0.4679)	info on Rv1004c/-
Rv1452c/PE_PGRS28	(cc=0.463)	info on Rv1452c/PE_PGRS28
Rv1992c/ctpG	(cc=0.4583)	info on Rv1992c/ctpG
Rv0250c/-	(cc=0.4558)	info on Rv0250c/-
Rv0492c/-	(cc=0.4489)	info on Rv0492c/-
Rv2519/PE26	(cc=0.4469)	info on Rv2519/PE26

Correlation of Rv1468c/PE_PGRS29 with Rv2205c/-

Normalized LFCs for Rv1468c/PE_PGRS29:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv1468c/PE_PGRS29	Rv2205c/-
Fe_supp_jason_reseq	0.425	0.469
low_pH_jason_reseq	0.274	0.0
NO_jason_reseq	-1.229	-0.368
B6_jason_reseq	-0.718	-0.02
MHCII_jason_reseq	-0.801	0.0
Isoniazid02	0.303	0.646
Rifampicin4	1.968	0.455
Ethambutol3	1.278	0.845
Meropenem3	1.473	1.636
Vancomycin16	0.43	-0.329
Rv2680_day32	-0.64	-0.144
H37Rv_KO_MarP	-0.049	0.704
hypoxia_3wks	-0.694	-0.367
hypoxia_6wks	-0.735	-1.161
glycerol	0.0	0.13
cholesterol	-0.388	-0.108
AJ	1.612	0.602
Bibs02	0.389	0.07
Bibs02c	0.0	0.294
BL6	-0.835	-0.654
BL6a	0.0	0.108
BXD01	0.235	-0.014
BXD010	-0.675	-0.483
BXD011	-0.078	-0.854
BXD03	-0.2	-0.151
BXD04	0.024	0.179
BXD05	0.308	-0.192
BXD06	-0.428	-0.422
BXD07	0.339	-0.468
BXD08	0.519	-0.342
BXD09	0.054	-0.402
CAST	0.415	0.324
CCcont	0.168	-0.767
DS01	0.652	0.388
DS02	0.789	0.621
DS04	1.835	0.822
DS0c	-0.178	0.047
GP01	1.93	0.763
GP02	0.863	0.318
GP0c	1.155	0.332
NOD	-0.436	0.464
NZO	0.751	0.535
PWK	0.254	-0.112
H37Rv_KO_CtpC	1.094	-0.112
H37Rv_KO_CtpD	2.032	-0.628
H37Rv_KO_Rv1272	1.204	0.245
H37Rv_KO_SugABC	0.346	-0.574
H37Rv_KO_MbtN	1.692	1.578
Trans05	-0.193	0.078
macrophage_unactivated	-0.117	-0.735
IL1	-0.169	-0.86
Rapamycin	-0.608	-0.994
Tcell	0.059	-0.583
GMCSF	0.143	0.024
IFNab	-0.599	-0.774
IFNg	-1.141	-0.898
IFNg_GMCSF1	0.798	0.421
Rv1432_day32	0.07	-0.541
Rv1565c_day32	-1.33	0.117
secA2_input	-0.462	-0.645
delta_Rv3594	0.6	0.489
delta_Rv3717	0.865	0.228
delta_Rv3811	0.708	1.023
delta_Rv0954	1.499	0.213
PonA1	0.99	0.309
EccD1_KO	-0.523	0.506
EspI_KO	-0.787	0.499
PE35_KO	-0.505	0.07
PPE68_KO	-0.291	-0.106
glycerol2	-0.22	-0.957
lignocerate	0.033	-0.578
oleate	0.057	-0.242
phosphatidylcholine	-0.262	-0.422
acetate	-0.163	-0.678
glucAc	-0.491	-0.955
Rv0950ko	0.202	0.694
Rv1096ko	-0.127	-0.259
Rv3684ko	0.177	0.265
delta_otsA_trehalose	0.284	0.673