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 Rv3779/-:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv3632/-	(cc=0.8049)	info on Rv3632/-
Rv3631/-	(cc=0.7896)	info on Rv3631/-
Rv1096/-	(cc=0.6035)	info on Rv1096/-
Rv1244/lpqZ	(cc=0.5615)	info on Rv1244/lpqZ
Rv1747/-	(cc=0.5562)	info on Rv1747/-
Rv1337/-	(cc=0.5138)	info on Rv1337/-
Rv2350c/plcB	(cc=0.506)	info on Rv2350c/plcB
Rv0380c/-	(cc=0.4884)	info on Rv0380c/-
Rv3910/-	(cc=0.4839)	info on Rv3910/-
Rv3683/-	(cc=0.4768)	info on Rv3683/-

Correlation of Rv3779/- with Rv3632/-

Normalized LFCs for Rv3779/-:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv3779/-	Rv3632/-
Fe_supp_jason_reseq	0.208	-0.483
low_pH_jason_reseq	0.811	0.577
NO_jason_reseq	0.911	1.137
B6_jason_reseq	-1.404	0.367
MHCII_jason_reseq	-3.086	-2.782
Isoniazid02	-0.071	-0.033
Rifampicin4	-0.95	-0.347
Ethambutol3	-1.407	-2.416
Meropenem3	-1.922	-1.654
Vancomycin16	-6.0	-6.0
Rv2680_day32	-1.114	-0.883
H37Rv_KO_MarP	-1.199	-0.521
hypoxia_3wks	3.086	2.967
hypoxia_6wks	3.184	2.873
glycerol	-0.748	-1.058
cholesterol	-1.569	-1.491
AJ	-0.832	-1.215
Bibs02	-1.519	-2.662
Bibs02c	-2.122	-2.514
BL6	-0.391	-2.497
BL6a	-1.013	-2.307
BXD01	0.106	-0.898
BXD010	0.114	-1.178
BXD011	0.532	-1.493
BXD03	0.668	-1.349
BXD04	0.041	-0.549
BXD05	0.305	-1.277
BXD06	0.087	-0.752
BXD07	0.524	-1.407
BXD08	0.699	-0.444
BXD09	-0.036	-1.679
CAST	-2.139	-0.973
CCcont	0.984	-0.753
DS01	-2.986	-3.858
DS02	-1.112	-1.731
DS04	-1.882	-3.611
DS0c	-2.349	-1.661
GP01	-0.051	-0.771
GP02	-0.349	-1.536
GP0c	0.492	-0.897
NOD	-0.26	0.742
NZO	-0.288	-0.236
PWK	-1.202	-0.655
H37Rv_KO_CtpC	-0.971	-1.703
H37Rv_KO_CtpD	-0.563	-2.702
H37Rv_KO_Rv1272	-0.177	-0.896
H37Rv_KO_SugABC	-0.367	-2.561
H37Rv_KO_MbtN	-0.472	-1.794
Trans05	0.365	-0.529
macrophage_unactivated	-0.12	0.492
IL1	1.302	1.548
Rapamycin	0.313	0.172
Tcell	0.684	0.746
GMCSF	0.554	0.605
IFNab	-0.747	-1.11
IFNg	-0.021	-0.318
IFNg_GMCSF1	-0.119	-0.182
Rv1432_day32	-1.516	-1.501
Rv1565c_day32	-2.183	-2.323
secA2_input	-0.348	0.368
delta_Rv3594	0.173	-0.831
delta_Rv3717	-0.047	-1.148
delta_Rv3811	0.149	-1.06
delta_Rv0954	0.346	0.11
PonA1	-0.317	-0.184
EccD1_KO	-1.269	-0.921
EspI_KO	-1.58	-1.631
PE35_KO	-1.575	-1.657
PPE68_KO	-1.638	-1.053
glycerol2	-0.05	0.301
lignocerate	-2.635	-2.999
oleate	-1.401	-0.777
phosphatidylcholine	-1.91	-1.41
acetate	-0.229	-0.088
glucAc	-0.089	-0.337
Rv0950ko	0.986	0.479
Rv1096ko	1.23	0.621
Rv3684ko	1.336	1.012
delta_otsA_trehalose	-0.85	-1.207