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 Rv1287/-:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv2467/pepN	(cc=0.7005)	info on Rv2467/pepN
Rv0561c/-	(cc=0.6926)	info on Rv0561c/-
Rv1323/fadA4	(cc=0.6389)	info on Rv1323/fadA4
Rv2563/-	(cc=0.634)	info on Rv2563/-
Rv0910/-	(cc=0.6298)	info on Rv0910/-
Rv0406c/-	(cc=0.628)	info on Rv0406c/-
Rv0634A/-	(cc=0.6274)	info on Rv0634A/-
Rv2258c/-	(cc=0.6125)	info on Rv2258c/-
Rv3041c/-	(cc=0.6091)	info on Rv3041c/-
Rv1473/-	(cc=0.6039)	info on Rv1473/-

Correlation of Rv1287/- with Rv2467/pepN

Normalized LFCs for Rv1287/-:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv1287/-	Rv2467/pepN
Fe_supp_jason_reseq	2.9	3.498
low_pH_jason_reseq	0.323	0.831
NO_jason_reseq	-0.583	-1.016
B6_jason_reseq	0.571	-0.311
MHCII_jason_reseq	0.098	1.018
Isoniazid02	0.805	-0.077
Rifampicin4	-0.374	-0.915
Ethambutol3	0.822	0.18
Meropenem3	0.633	0.049
Vancomycin16	-0.31	-0.17
Rv2680_day32	-2.282	-0.75
H37Rv_KO_MarP	0.24	0.388
hypoxia_3wks	-2.999	-1.017
hypoxia_6wks	-2.714	-1.432
glycerol	-0.66	1.006
cholesterol	2.591	1.421
AJ	-1.44	-0.482
Bibs02	-0.309	-0.55
Bibs02c	-0.64	0.674
BL6	-2.144	-1.549
BL6a	-2.04	0.218
BXD01	-2.037	-1.286
BXD010	-1.759	-1.363
BXD011	-2.084	-0.886
BXD03	-1.284	-0.487
BXD04	-1.934	-0.896
BXD05	-1.929	-1.38
BXD06	-1.914	-1.368
BXD07	-1.315	-0.888
BXD08	-1.827	-0.622
BXD09	-2.409	-1.614
CAST	-1.779	-1.602
CCcont	-0.729	0.399
DS01	-0.772	-1.389
DS02	-0.758	-1.843
DS04	-0.593	-1.844
DS0c	-0.069	-0.781
GP01	-1.865	-0.278
GP02	-1.654	-0.063
GP0c	-2.455	-1.437
NOD	-1.886	-1.266
NZO	-2.419	-1.075
PWK	-1.391	-1.662
H37Rv_KO_CtpC	0.872	0.36
H37Rv_KO_CtpD	-0.683	-0.309
H37Rv_KO_Rv1272	-1.513	0.0
H37Rv_KO_SugABC	-1.251	-0.206
H37Rv_KO_MbtN	-1.062	-0.015
Trans05	-1.721	-1.558
macrophage_unactivated	-0.12	0.511
IL1	-1.967	0.481
Rapamycin	-0.761	0.307
Tcell	0.358	0.821
GMCSF	-0.776	-0.38
IFNab	0.435	-0.671
IFNg	-1.179	0.179
IFNg_GMCSF1	-1.225	0.0
Rv1432_day32	-0.787	0.687
Rv1565c_day32	3.074	0.261
secA2_input	0.023	0.573
delta_Rv3594	2.232	2.216
delta_Rv3717	0.81	0.784
delta_Rv3811	0.779	1.785
delta_Rv0954	4.017	0.364
PonA1	1.101	0.044
EccD1_KO	1.151	0.99
EspI_KO	2.321	1.095
PE35_KO	1.473	1.286
PPE68_KO	2.342	1.725
glycerol2	-0.43	-0.178
lignocerate	0.675	-0.564
oleate	-0.603	-1.598
phosphatidylcholine	-0.043	-0.241
acetate	0.025	0.46
glucAc	0.122	0.295
Rv0950ko	-0.045	0.103
Rv1096ko	0.353	0.202
Rv3684ko	1.484	1.159
delta_otsA_trehalose	1.312	0.437