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 Rv0919/-:

update plot	correlation	link to info on gene
Rv0724A/-	(cc=0.5068)	info on Rv0724A/-
Rv0840c/pip	(cc=0.4954)	info on Rv0840c/pip
Rv2083/-	(cc=0.4901)	info on Rv2083/-
Rv1989c/-	(cc=0.4782)	info on Rv1989c/-
Rv1563c/treY	(cc=0.4717)	info on Rv1563c/treY
Rv3060c/-	(cc=0.4571)	info on Rv3060c/-
Rv1863c/-	(cc=0.4522)	info on Rv1863c/-
Rv3903c/-	(cc=0.4476)	info on Rv3903c/-
Rv2293c/-	(cc=0.4443)	info on Rv2293c/-
Rv2624c/-	(cc=0.4326)	info on Rv2624c/-

Correlation of Rv0919/- with Rv2083/-

Normalized LFCs for Rv0919/-:
(description and provenance of datasets)

	Rv0919/-	Rv2083/-
Fe_supp_jason_reseq	0.575	0.221
low_pH_jason_reseq	0.351	0.843
NO_jason_reseq	-0.546	-0.782
B6_jason_reseq	0.104	-0.223
MHCII_jason_reseq	1.078	0.977
Isoniazid02	0.506	0.64
Rifampicin4	-0.184	1.324
Ethambutol3	1.583	2.234
Meropenem3	0.078	0.758
Vancomycin16	0.337	0.499
Rv2680_day32	-0.401	0.184
H37Rv_KO_MarP	0.111	-0.217
hypoxia_3wks	0.355	0.53
hypoxia_6wks	-0.271	-0.215
glycerol	-0.392	0.613
cholesterol	-0.174	0.119
AJ	0.503	0.829
Bibs02	0.609	0.27
Bibs02c	0.755	1.643
BL6	-1.06	-0.434
BL6a	0.271	1.247
BXD01	-0.288	-0.269
BXD010	0.587	0.488
BXD011	-0.122	-0.09
BXD03	0.287	0.594
BXD04	0.402	0.294
BXD05	-0.548	0.045
BXD06	-0.132	-0.221
BXD07	-0.043	-0.458
BXD08	-0.824	0.116
BXD09	0.011	0.365
CAST	-0.394	0.527
CCcont	-0.963	-0.817
DS01	0.436	1.304
DS02	-0.495	0.632
DS04	1.124	0.371
DS0c	-0.013	-0.127
GP01	-0.079	0.039
GP02	0.306	1.442
GP0c	-0.314	0.378
NOD	0.542	0.574
NZO	0.4	0.688
PWK	-0.229	0.709
H37Rv_KO_CtpC	-0.353	1.012
H37Rv_KO_CtpD	0.781	0.686
H37Rv_KO_Rv1272	0.343	1.624
H37Rv_KO_SugABC	0.318	0.703
H37Rv_KO_MbtN	0.491	-0.832
Trans05	0.354	0.935
macrophage_unactivated	0.054	0.83
IL1	0.113	0.952
Rapamycin	-0.132	0.147
Tcell	-0.349	0.137
GMCSF	0.784	0.473
IFNab	-0.478	1.052
IFNg	-0.011	1.229
IFNg_GMCSF1	0.185	0.581
Rv1432_day32	0.894	0.777
Rv1565c_day32	-0.239	0.584
secA2_input	-0.454	0.205
delta_Rv3594	0.098	0.662
delta_Rv3717	0.608	0.94
delta_Rv3811	-0.665	0.956
delta_Rv0954	0.385	0.804
PonA1	-0.218	-0.882
EccD1_KO	0.368	1.184
EspI_KO	1.403	1.363
PE35_KO	0.563	0.974
PPE68_KO	0.301	0.336
glycerol2	-0.057	-0.921
lignocerate	-0.179	-1.23
oleate	0.682	-0.037
phosphatidylcholine	0.197	-0.534
acetate	-0.628	-1.769
glucAc	-0.871	-2.327
Rv0950ko	-0.311	-0.748
Rv1096ko	0.027	-0.679
Rv3684ko	-0.203	-1.461
delta_otsA_trehalose	3.331	1.124