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 Rv2126c/PE_PGRS37:

update plot	correlation	link to info on gene
Rv2972c/-	(cc=0.5261)	info on Rv2972c/-
Rv2970A/-	(cc=0.4649)	info on Rv2970A/-
Rv2779c/-	(cc=0.4421)	info on Rv2779c/-
Rv3430c/-	(cc=0.4414)	info on Rv3430c/-
Rv1879/-	(cc=0.4323)	info on Rv1879/-
Rv1579c/-	(cc=0.4048)	info on Rv1579c/-
Rv3339c/icd1	(cc=0.3928)	info on Rv3339c/icd1
Rv0728c/serA2	(cc=0.3883)	info on Rv0728c/serA2
Rv3123/-	(cc=0.3877)	info on Rv3123/-
Rv1520/-	(cc=0.3711)	info on Rv1520/-

Correlation of Rv2126c/PE_PGRS37 with Rv2970A/-

Normalized LFCs for Rv2126c/PE_PGRS37:
(description and provenance of datasets)

	Rv2126c/PE_PGRS37	Rv2970A/-
Fe_supp_jason_reseq	0.257	1.023
low_pH_jason_reseq	-0.065	0.835
NO_jason_reseq	-0.722	-0.572
B6_jason_reseq	0.766	0.598
MHCII_jason_reseq	0.501	-1.115
Isoniazid02	0.781	2.002
Rifampicin4	0.853	0.409
Ethambutol3	3.067	5.696
Meropenem3	1.497	0.444
Vancomycin16	0.799	0.846
Rv2680_day32	1.032	0.715
H37Rv_KO_MarP	-0.168	0.968
hypoxia_3wks	-0.494	-0.778
hypoxia_6wks	-0.829	0.766
glycerol	-0.186	-0.389
cholesterol	-0.961	0.184
AJ	0.615	-1.704
Bibs02	0.64	-1.269
Bibs02c	0.997	0.303
BL6	-0.048	3.312
BL6a	0.913	2.184
BXD01	1.015	2.485
BXD010	-0.391	1.936
BXD011	1.425	2.424
BXD03	-0.482	2.181
BXD04	1.608	1.689
BXD05	0.507	3.209
BXD06	0.699	2.483
BXD07	0.693	2.987
BXD08	0.98	1.885
BXD09	0.359	2.328
CAST	-1.268	0.699
CCcont	-0.48	2.221
DS01	-0.457	0.527
DS02	-0.083	-0.866
DS04	0.814	-1.196
DS0c	-0.42	-0.735
GP01	-1.837	-1.621
GP02	-0.065	-1.116
GP0c	-0.636	-0.156
NOD	-0.27	1.051
NZO	0.282	-0.62
PWK	-0.35	0.118
H37Rv_KO_CtpC	-0.195	0.293
H37Rv_KO_CtpD	-0.84	0.051
H37Rv_KO_Rv1272	-0.776	0.802
H37Rv_KO_SugABC	0.966	-0.749
H37Rv_KO_MbtN	1.055	1.533
Trans05	-0.836	0.0
macrophage_unactivated	-0.41	1.414
IL1	1.071	1.706
Rapamycin	0.896	0.482
Tcell	0.606	0.577
GMCSF	0.824	0.304
IFNab	0.396	1.684
IFNg	0.468	0.318
IFNg_GMCSF1	0.688	0.657
Rv1432_day32	0.284	0.0
Rv1565c_day32	-0.93	-0.599
secA2_input	0.792	2.779
delta_Rv3594	-0.87	-0.672
delta_Rv3717	-0.614	-0.248
delta_Rv3811	-0.226	-0.822
delta_Rv0954	-1.244	-2.417
PonA1	-1.028	0.0
EccD1_KO	-0.497	0.099
EspI_KO	0.2	-0.89
PE35_KO	-0.213	0.058
PPE68_KO	-0.077	-0.032
glycerol2	0.349	0.835
lignocerate	0.026	2.012
oleate	1.404	0.434
phosphatidylcholine	0.514	1.303
acetate	-0.256	1.652
glucAc	-0.394	1.092
Rv0950ko	-0.66	0.823
Rv1096ko	-0.917	-0.106
Rv3684ko	-1.294	-1.323
delta_otsA_trehalose	0.657	-1.271