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 Rv0604/lpqO:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv2879c/-	(cc=0.519)	info on Rv2879c/-
Rv1249c/-	(cc=0.4964)	info on Rv1249c/-
Rv1442/bisC	(cc=0.4954)	info on Rv1442/bisC
Rv3532/PPE61	(cc=0.4866)	info on Rv3532/PPE61
Rv0302/-	(cc=0.4756)	info on Rv0302/-
Rv2007c/fdxA	(cc=0.4718)	info on Rv2007c/fdxA
Rv2880c/-	(cc=0.4691)	info on Rv2880c/-
Rv0015c/pknA	(cc=0.4678)	info on Rv0015c/pknA
Rv0269c/-	(cc=0.4656)	info on Rv0269c/-
Rv0061c/-	(cc=0.4604)	info on Rv0061c/-

Correlation of Rv0604/lpqO with Rv2879c/-

Normalized LFCs for Rv0604/lpqO:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv0604/lpqO	Rv2879c/-
Fe_supp_jason_reseq	1.159	-0.431
low_pH_jason_reseq	-1.474	-0.86
NO_jason_reseq	-2.195	-0.013
B6_jason_reseq	0.798	0.737
MHCII_jason_reseq	1.287	0.494
Isoniazid02	0.038	-0.025
Rifampicin4	0.347	0.68
Ethambutol3	-0.17	0.765
Meropenem3	0.048	-0.041
Vancomycin16	0.0	0.846
Rv2680_day32	-0.525	-1.058
H37Rv_KO_MarP	0.116	0.127
hypoxia_3wks	0.53	-0.315
hypoxia_6wks	-0.507	-0.75
glycerol	1.27	-0.139
cholesterol	0.077	-0.354
AJ	0.729	-0.425
Bibs02	1.249	0.887
Bibs02c	0.896	0.765
BL6	0.144	0.388
BL6a	0.027	-0.136
BXD01	0.39	-0.346
BXD010	-0.118	-0.295
BXD011	-0.94	-0.363
BXD03	-0.115	0.302
BXD04	-1.037	-0.147
BXD05	0.089	0.274
BXD06	-0.78	-0.373
BXD07	-0.46	0.336
BXD08	0.509	-0.173
BXD09	-0.416	0.232
CAST	-0.112	-0.082
CCcont	0.098	-0.3
DS01	0.731	0.098
DS02	0.684	0.126
DS04	0.839	0.923
DS0c	0.404	0.0
GP01	0.0	0.453
GP02	-0.262	-1.351
GP0c	-0.101	-0.196
NOD	-0.921	-0.431
NZO	0.118	0.0
PWK	-0.124	-0.158
H37Rv_KO_CtpC	-1.291	-0.374
H37Rv_KO_CtpD	-0.532	0.406
H37Rv_KO_Rv1272	-1.06	-0.156
H37Rv_KO_SugABC	-1.802	0.227
H37Rv_KO_MbtN	-0.819	-1.134
Trans05	0.462	0.223
macrophage_unactivated	1.18	-0.306
IL1	0.027	0.383
Rapamycin	-0.792	0.064
Tcell	-0.274	-0.407
GMCSF	0.14	0.055
IFNab	-0.342	-0.015
IFNg	-1.085	0.096
IFNg_GMCSF1	2.124	0.943
Rv1432_day32	1.395	0.521
Rv1565c_day32	1.058	0.453
secA2_input	-0.221	-0.036
delta_Rv3594	-0.857	-0.835
delta_Rv3717	-1.05	-1.236
delta_Rv3811	-1.689	-0.515
delta_Rv0954	-0.724	-0.486
PonA1	-2.328	-0.802
EccD1_KO	0.506	-0.178
EspI_KO	-0.24	0.582
PE35_KO	0.175	0.63
PPE68_KO	0.637	0.288
glycerol2	0.726	0.652
lignocerate	1.142	0.293
oleate	1.353	0.434
phosphatidylcholine	1.452	0.423
acetate	0.843	-0.057
glucAc	0.631	-0.164
Rv0950ko	0.799	0.208
Rv1096ko	0.124	-0.072
Rv3684ko	0.665	0.056
delta_otsA_trehalose	1.318	0.918