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 Rv0232/-:

update plot	correlation	link to info on gene
Rv0921/-	(cc=0.6382)	info on Rv0921/-
Rv0230c/php	(cc=0.6058)	info on Rv0230c/php
Rv1501/-	(cc=0.5498)	info on Rv1501/-
Rv3329/-	(cc=0.5448)	info on Rv3329/-
Rv0194/-	(cc=0.5273)	info on Rv0194/-
Rv0934/pstS1	(cc=0.524)	info on Rv0934/pstS1
Rv3473c/bpoA	(cc=0.5225)	info on Rv3473c/bpoA
Rv0083/-	(cc=0.5221)	info on Rv0083/-
Rv3026c/-	(cc=0.5137)	info on Rv3026c/-
Rv3389c/htdY	(cc=0.5036)	info on Rv3389c/htdY

Correlation of Rv0232/- with Rv0921/-

Normalized LFCs for Rv0232/-:
(description and provenance of datasets)

	Rv0232/-	Rv0921/-
Fe_supp_jason_reseq	-0.499	0.559
low_pH_jason_reseq	-0.059	-0.806
NO_jason_reseq	-0.171	-1.397
B6_jason_reseq	0.053	0.841
MHCII_jason_reseq	0.166	1.168
Isoniazid02	-1.643	-2.772
Rifampicin4	0.368	0.544
Ethambutol3	-1.762	-2.452
Meropenem3	-1.523	-2.192
Vancomycin16	-1.051	-1.072
Rv2680_day32	0.441	1.328
H37Rv_KO_MarP	0.03	0.423
hypoxia_3wks	0.207	0.506
hypoxia_6wks	0.388	-0.835
glycerol	-0.363	-1.145
cholesterol	0.037	-0.304
AJ	-0.067	0.724
Bibs02	0.262	0.742
Bibs02c	-0.232	-0.227
BL6	0.179	0.278
BL6a	-0.303	0.112
BXD01	-0.292	0.354
BXD010	-0.766	0.589
BXD011	-0.178	0.145
BXD03	0.546	0.6
BXD04	1.058	0.617
BXD05	0.183	0.829
BXD06	-0.226	0.456
BXD07	-0.153	0.367
BXD08	0.715	0.085
BXD09	-0.057	0.632
CAST	0.354	-0.652
CCcont	-0.106	0.391
DS01	0.118	0.178
DS02	0.098	0.189
DS04	-0.828	-0.284
DS0c	0.71	0.371
GP01	-0.049	-0.512
GP02	0.568	1.263
GP0c	0.167	-0.614
NOD	-0.661	-0.661
NZO	-0.24	0.423
PWK	0.077	0.436
H37Rv_KO_CtpC	-0.331	-0.325
H37Rv_KO_CtpD	-0.097	-1.413
H37Rv_KO_Rv1272	-1.309	-0.731
H37Rv_KO_SugABC	0.014	0.293
H37Rv_KO_MbtN	0.205	-1.175
Trans05	-0.686	-1.426
macrophage_unactivated	0.271	1.061
IL1	0.427	0.516
Rapamycin	0.479	0.819
Tcell	0.28	0.704
GMCSF	0.544	0.66
IFNab	0.883	0.472
IFNg	0.198	1.43
IFNg_GMCSF1	0.311	0.525
Rv1432_day32	0.445	0.716
Rv1565c_day32	-0.199	0.559
secA2_input	0.988	0.956
delta_Rv3594	-0.795	-0.482
delta_Rv3717	-0.113	-0.831
delta_Rv3811	-0.393	0.28
delta_Rv0954	0.022	0.6
PonA1	-0.305	0.88
EccD1_KO	-0.572	0.132
EspI_KO	-0.302	0.294
PE35_KO	-0.811	0.163
PPE68_KO	-1.206	-0.298
glycerol2	0.912	-0.081
lignocerate	0.81	0.208
oleate	0.682	0.086
phosphatidylcholine	0.945	0.189
acetate	0.055	0.367
glucAc	-0.024	0.069
Rv0950ko	0.697	0.847
Rv1096ko	0.67	1.252
Rv3684ko	0.458	1.588
delta_otsA_trehalose	-2.297	-1.548