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 Rv3064c/-:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv0281/-	(cc=0.4621)	info on Rv0281/-
Rv3321c/vapB44	(cc=0.4512)	info on Rv3321c/vapB44
Rv3468c/-	(cc=0.4473)	info on Rv3468c/-
Rv0997/-	(cc=0.4449)	info on Rv0997/-
Rv2689c/-	(cc=0.4438)	info on Rv2689c/-
Rv2575/-	(cc=0.4329)	info on Rv2575/-
Rv0442c/PPE10	(cc=0.432)	info on Rv0442c/PPE10
Rv1562c/treZ	(cc=0.4305)	info on Rv1562c/treZ
Rv3819/-	(cc=0.4286)	info on Rv3819/-
Rv2463/lipP	(cc=0.4163)	info on Rv2463/lipP

Correlation of Rv3064c/- with Rv0281/-

Normalized LFCs for Rv3064c/-:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv3064c/-	Rv0281/-
Fe_supp_jason_reseq	-0.497	-0.451
low_pH_jason_reseq	-0.074	-1.598
NO_jason_reseq	0.194	0.249
B6_jason_reseq	-0.165	-0.917
MHCII_jason_reseq	-0.668	-0.72
Isoniazid02	0.374	0.163
Rifampicin4	0.485	-0.525
Ethambutol3	1.597	0.59
Meropenem3	0.156	0.501
Vancomycin16	0.379	-0.157
Rv2680_day32	0.261	0.399
H37Rv_KO_MarP	0.509	0.349
hypoxia_3wks	-0.355	-0.06
hypoxia_6wks	-0.699	-0.161
glycerol	-0.288	-0.019
cholesterol	0.041	-0.593
AJ	0.055	-0.057
Bibs02	-0.282	0.596
Bibs02c	-0.071	0.881
BL6	0.312	-0.994
BL6a	0.11	-0.059
BXD01	0.424	-0.496
BXD010	0.106	-1.004
BXD011	0.176	-0.433
BXD03	0.081	0.213
BXD04	0.39	-0.067
BXD05	0.429	-0.08
BXD06	0.333	-0.843
BXD07	0.431	-0.557
BXD08	1.596	0.025
BXD09	0.65	-0.606
CAST	-0.182	0.0
CCcont	0.194	-0.439
DS01	0.356	-0.253
DS02	-0.011	-0.221
DS04	0.684	0.645
DS0c	-0.754	0.052
GP01	-0.324	-0.455
GP02	0.247	0.222
GP0c	-0.74	-0.333
NOD	0.747	-0.705
NZO	-0.107	-0.831
PWK	-0.038	-0.328
H37Rv_KO_CtpC	-0.015	0.092
H37Rv_KO_CtpD	0.094	-0.584
H37Rv_KO_Rv1272	0.45	-0.618
H37Rv_KO_SugABC	0.748	0.796
H37Rv_KO_MbtN	0.295	0.272
Trans05	-0.322	0.012
macrophage_unactivated	-0.095	0.202
IL1	-0.421	-0.344
Rapamycin	-0.47	-0.028
Tcell	0.016	0.0
GMCSF	1.22	0.462
IFNab	-0.03	-0.172
IFNg	0.067	-0.024
IFNg_GMCSF1	-0.786	-0.211
Rv1432_day32	0.034	-0.317
Rv1565c_day32	2.243	0.55
secA2_input	-0.246	-0.407
delta_Rv3594	-0.177	-0.716
delta_Rv3717	-0.588	-0.624
delta_Rv3811	-0.467	-0.409
delta_Rv0954	-0.363	-0.41
PonA1	-0.37	-0.337
EccD1_KO	-0.099	-0.569
EspI_KO	-0.513	-1.494
PE35_KO	-0.07	-1.167
PPE68_KO	0.019	-1.094
glycerol2	0.416	0.646
lignocerate	0.608	0.549
oleate	0.346	0.846
phosphatidylcholine	0.706	0.843
acetate	0.672	0.037
glucAc	1.074	-0.125
Rv0950ko	0.196	-0.492
Rv1096ko	-0.045	-0.763
Rv3684ko	0.295	-1.009
delta_otsA_trehalose	2.722	1.655