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 Rv0691A/-:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv0841/-	(cc=0.5986)	info on Rv0841/-
Rv0595c/vapC4	(cc=0.5811)	info on Rv0595c/vapC4
Rv0692/-	(cc=0.5473)	info on Rv0692/-
Rv1999c/-	(cc=0.5166)	info on Rv1999c/-
Rv3439c/-	(cc=0.5003)	info on Rv3439c/-
Rv0433/-	(cc=0.4969)	info on Rv0433/-
Rv2405/-	(cc=0.4941)	info on Rv2405/-
Rv2727c/miaA	(cc=0.4909)	info on Rv2727c/miaA
Rv3703c/-	(cc=0.488)	info on Rv3703c/-
Rv3874/esxB	(cc=0.4815)	info on Rv3874/esxB

Correlation of Rv0691A/- with Rv0841/-

Normalized LFCs for Rv0691A/-:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv0691A/-	Rv0841/-
Fe_supp_jason_reseq	1.449	0.941
low_pH_jason_reseq	-1.188	-2.299
NO_jason_reseq	0.0	-0.247
B6_jason_reseq	1.554	-0.76
MHCII_jason_reseq	0.545	1.021
Isoniazid02	0.084	-0.079
Rifampicin4	0.344	0.655
Ethambutol3	0.326	-0.224
Meropenem3	0.476	0.053
Vancomycin16	0.992	0.642
Rv2680_day32	0.0	0.0
H37Rv_KO_MarP	-0.243	-0.078
hypoxia_3wks	-0.678	-1.934
hypoxia_6wks	1.733	1.806
glycerol	-0.023	-0.756
cholesterol	-2.556	-0.456
AJ	0.077	-1.173
Bibs02	-4.059	0.245
Bibs02c	-2.176	-1.428
BL6	-2.901	-2.599
BL6a	-2.87	-3.418
BXD01	-3.021	-2.706
BXD010	-2.971	-2.661
BXD011	-1.044	-2.646
BXD03	-3.137	-2.809
BXD04	-1.684	-1.286
BXD05	-2.987	-2.796
BXD06	-2.441	-2.64
BXD07	-2.443	-2.877
BXD08	-3.085	-2.763
BXD09	-3.26	-2.534
CAST	-2.396	-1.448
CCcont	-2.233	-2.274
DS01	-2.057	-1.815
DS02	0.733	-1.424
DS04	-0.441	-2.256
DS0c	-1.383	-0.482
GP01	0.837	-0.595
GP02	-0.584	-0.061
GP0c	1.651	1.083
NOD	-2.203	-2.249
NZO	-1.313	-1.202
PWK	-0.186	-1.691
H37Rv_KO_CtpC	-3.458	-1.626
H37Rv_KO_CtpD	0.448	0.277
H37Rv_KO_Rv1272	-0.899	-2.93
H37Rv_KO_SugABC	-2.298	-0.434
H37Rv_KO_MbtN	-2.108	-0.792
Trans05	0.677	-2.715
macrophage_unactivated	2.273	-0.701
IL1	0.475	-1.439
Rapamycin	-0.267	-1.488
Tcell	-0.59	-1.134
GMCSF	-1.658	-1.281
IFNab	-0.263	-1.466
IFNg	-2.047	-1.296
IFNg_GMCSF1	-0.569	1.386
Rv1432_day32	-0.155	0.18
Rv1565c_day32	0.0	0.393
secA2_input	-2.376	-1.13
delta_Rv3594	0.453	0.558
delta_Rv3717	0.593	1.024
delta_Rv3811	0.781	0.385
delta_Rv0954	1.156	0.264
PonA1	2.278	1.333
EccD1_KO	-1.901	1.585
EspI_KO	-1.968	-1.851
PE35_KO	-2.08	-1.779
PPE68_KO	-1.648	-1.328
glycerol2	1.073	-1.297
lignocerate	0.32	-1.128
oleate	0.0	-1.313
phosphatidylcholine	0.819	-1.104
acetate	0.0	0.459
glucAc	1.367	0.994
Rv0950ko	-0.241	1.242
Rv1096ko	-0.7	1.644
Rv3684ko	1.028	1.477
delta_otsA_trehalose	0.742	0.643