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 Rv0137c/msrA:

update plot	correlation	link to info on gene
Rv0844c/narL	(cc=0.5839)	info on Rv0844c/narL
Rv3628/ppa	(cc=0.5817)	info on Rv3628/ppa
Rv0742/PE_PGRS8	(cc=0.5549)	info on Rv0742/PE_PGRS8
Rv0188/-	(cc=0.5007)	info on Rv0188/-
Rv1776c/-	(cc=0.4892)	info on Rv1776c/-
Rv0647c/-	(cc=0.4839)	info on Rv0647c/-
Rv3389c/htdY	(cc=0.4778)	info on Rv3389c/htdY
Rv3533c/PPE62	(cc=0.474)	info on Rv3533c/PPE62
Rv3427c/-	(cc=0.4578)	info on Rv3427c/-
Rv1787/PPE25	(cc=0.4528)	info on Rv1787/PPE25

Correlation of Rv0137c/msrA with Rv1787/PPE25

Normalized LFCs for Rv0137c/msrA:
(description and provenance of datasets)

	Rv0137c/msrA	Rv1787/PPE25
Fe_supp_jason_reseq	-1.208	-0.851
low_pH_jason_reseq	-1.256	-1.655
NO_jason_reseq	0.108	-0.042
B6_jason_reseq	-0.5	-1.404
MHCII_jason_reseq	-0.803	-1.249
Isoniazid02	0.029	0.308
Rifampicin4	0.287	0.842
Ethambutol3	-0.22	0.372
Meropenem3	-0.259	0.574
Vancomycin16	-0.027	-0.398
Rv2680_day32	-0.369	0.419
H37Rv_KO_MarP	0.429	-0.1
hypoxia_3wks	0.0	0.267
hypoxia_6wks	-0.532	0.0
glycerol	-0.32	0.041
cholesterol	-0.83	-0.952
AJ	0.556	0.492
Bibs02	-0.828	0.221
Bibs02c	0.067	-0.029
BL6	0.475	0.067
BL6a	0.611	0.158
BXD01	0.295	0.369
BXD010	-0.24	0.332
BXD011	0.202	0.413
BXD03	-0.349	0.551
BXD04	1.529	0.157
BXD05	0.054	0.695
BXD06	0.294	0.237
BXD07	-0.142	0.622
BXD08	0.084	0.401
BXD09	-0.469	0.435
CAST	-0.571	-0.008
CCcont	0.048	0.056
DS01	0.358	-0.476
DS02	-0.654	0.022
DS04	-0.032	0.559
DS0c	-0.053	0.044
GP01	1.497	0.916
GP02	0.589	1.683
GP0c	0.942	0.736
NOD	-1.193	-0.039
NZO	0.92	0.342
PWK	0.155	0.337
H37Rv_KO_CtpC	-0.013	0.718
H37Rv_KO_CtpD	0.466	0.635
H37Rv_KO_Rv1272	0.613	0.769
H37Rv_KO_SugABC	0.15	0.657
H37Rv_KO_MbtN	0.507	0.831
Trans05	0.305	0.971
macrophage_unactivated	0.139	0.41
IL1	-0.78	0.501
Rapamycin	0.181	-0.021
Tcell	0.639	0.632
GMCSF	0.304	1.009
IFNab	-0.85	-0.577
IFNg	-0.561	1.013
IFNg_GMCSF1	-0.5	0.886
Rv1432_day32	-0.506	0.394
Rv1565c_day32	-0.452	-0.581
secA2_input	0.279	0.504
delta_Rv3594	-1.614	-0.171
delta_Rv3717	-0.863	-0.298
delta_Rv3811	-2.278	-0.228
delta_Rv0954	-0.65	-0.238
PonA1	-1.814	-0.602
EccD1_KO	0.592	-0.043
EspI_KO	-0.411	0.371
PE35_KO	0.079	0.327
PPE68_KO	0.0	-0.186
glycerol2	0.432	0.017
lignocerate	0.483	-0.3
oleate	0.156	0.517
phosphatidylcholine	-0.21	0.353
acetate	0.161	-0.229
glucAc	0.354	-0.284
Rv0950ko	-0.546	0.323
Rv1096ko	-0.425	-0.688
Rv3684ko	-0.462	-0.793
delta_otsA_trehalose	-0.943	0.776