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 Rv1072/-:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv0563/htpX	(cc=0.7046)	info on Rv0563/htpX
Rv1100/-	(cc=0.6954)	info on Rv1100/-
Rv3419c/gcp	(cc=0.6835)	info on Rv3419c/gcp
Rv3689/-	(cc=0.6562)	info on Rv3689/-
Rv1239c/corA	(cc=0.6489)	info on Rv1239c/corA
Rv0051/-	(cc=0.6321)	info on Rv0051/-
Rv3278c/-	(cc=0.6209)	info on Rv3278c/-
Rv0823c/-	(cc=0.6041)	info on Rv0823c/-
Rv2793c/truB	(cc=0.5971)	info on Rv2793c/truB
Rv1209/-	(cc=0.596)	info on Rv1209/-

Correlation of Rv1072/- with Rv0563/htpX

Normalized LFCs for Rv1072/-:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv1072/-	Rv0563/htpX
Fe_supp_jason_reseq	3.452	1.76
low_pH_jason_reseq	0.709	3.803
NO_jason_reseq	-0.205	0.845
B6_jason_reseq	1.58	1.318
MHCII_jason_reseq	0.0	-1.332
Isoniazid02	-2.007	-2.187
Rifampicin4	-0.653	-2.342
Ethambutol3	3.263	1.796
Meropenem3	0.586	0.034
Vancomycin16	-0.727	-2.435
Rv2680_day32	-0.803	0.241
H37Rv_KO_MarP	-2.718	-3.429
hypoxia_3wks	0.0	1.236
hypoxia_6wks	1.451	-0.672
glycerol	0.089	-0.579
cholesterol	-1.261	-0.773
AJ	0.948	1.479
Bibs02	0.747	0.216
Bibs02c	0.653	0.399
BL6	2.081	1.054
BL6a	1.728	1.263
BXD01	3.146	1.681
BXD010	2.277	1.54
BXD011	3.036	0.722
BXD03	2.899	2.623
BXD04	5.696	2.885
BXD05	2.5	1.003
BXD06	2.909	1.906
BXD07	2.518	2.27
BXD08	3.668	2.084
BXD09	1.736	1.131
CAST	4.513	1.94
CCcont	2.429	1.835
DS01	0.965	0.76
DS02	0.821	-1.161
DS04	0.793	-0.259
DS0c	0.748	0.413
GP01	0.0	0.318
GP02	-0.166	-0.638
GP0c	-0.26	0.335
NOD	1.87	3.414
NZO	0.815	1.527
PWK	2.865	3.844
H37Rv_KO_CtpC	3.557	3.597
H37Rv_KO_CtpD	1.054	-0.363
H37Rv_KO_Rv1272	1.837	-0.329
H37Rv_KO_SugABC	1.948	0.797
H37Rv_KO_MbtN	2.179	0.196
Trans05	2.15	2.303
macrophage_unactivated	-1.13	0.48
IL1	-1.949	-0.397
Rapamycin	-2.961	-1.114
Tcell	1.466	1.193
GMCSF	-1.191	0.834
IFNab	0.0	1.466
IFNg	-1.756	-0.754
IFNg_GMCSF1	-0.465	0.386
Rv1432_day32	-0.887	0.763
Rv1565c_day32	0.401	-0.924
secA2_input	1.079	1.371
delta_Rv3594	-0.846	-1.634
delta_Rv3717	-2.079	-3.374
delta_Rv3811	-0.717	-1.28
delta_Rv0954	-2.135	-3.76
PonA1	-1.272	-1.401
EccD1_KO	1.312	2.125
EspI_KO	1.041	1.882
PE35_KO	0.306	-0.187
PPE68_KO	0.653	1.123
glycerol2	-0.451	0.369
lignocerate	-0.897	0.168
oleate	-0.588	0.196
phosphatidylcholine	-1.207	0.368
acetate	-0.535	1.539
glucAc	0.554	0.0
Rv0950ko	0.28	0.0
Rv1096ko	2.524	3.29
Rv3684ko	2.6	2.613
delta_otsA_trehalose	-1.013	2.344