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 Rv1143/mcr:

update plot	correlation	link to info on gene
Rv3026c/-	(cc=0.4826)	info on Rv3026c/-
Rv3633/-	(cc=0.4811)	info on Rv3633/-
Rv0921/-	(cc=0.4757)	info on Rv0921/-
Rv0517/-	(cc=0.4594)	info on Rv0517/-
Rv0843/-	(cc=0.4519)	info on Rv0843/-
Rv0232/-	(cc=0.4347)	info on Rv0232/-
Rv1812c/-	(cc=0.4336)	info on Rv1812c/-
Rv3086/adhD	(cc=0.4306)	info on Rv3086/adhD
Rv0730/-	(cc=0.4303)	info on Rv0730/-
Rv1788/PE18	(cc=0.4274)	info on Rv1788/PE18

Correlation of Rv1143/mcr with Rv0921/-

Normalized LFCs for Rv1143/mcr:
(description and provenance of datasets)

	Rv1143/mcr	Rv0921/-
Fe_supp_jason_reseq	-0.987	0.559
low_pH_jason_reseq	-0.694	-0.806
NO_jason_reseq	0.147	-1.397
B6_jason_reseq	0.385	0.841
MHCII_jason_reseq	0.222	1.168
Isoniazid02	-0.37	-2.772
Rifampicin4	-0.184	0.544
Ethambutol3	-0.21	-2.452
Meropenem3	-0.401	-2.192
Vancomycin16	-0.247	-1.072
Rv2680_day32	0.5	1.328
H37Rv_KO_MarP	-0.199	0.423
hypoxia_3wks	-0.207	0.506
hypoxia_6wks	-0.205	-0.835
glycerol	-0.48	-1.145
cholesterol	-0.034	-0.304
AJ	0.229	0.724
Bibs02	0.489	0.742
Bibs02c	0.703	-0.227
BL6	0.348	0.278
BL6a	0.211	0.112
BXD01	0.128	0.354
BXD010	0.263	0.589
BXD011	-0.15	0.145
BXD03	0.271	0.6
BXD04	0.176	0.617
BXD05	0.071	0.829
BXD06	0.278	0.456
BXD07	0.147	0.367
BXD08	0.03	0.085
BXD09	0.244	0.632
CAST	-0.589	-0.652
CCcont	-0.201	0.391
DS01	0.561	0.178
DS02	0.6	0.189
DS04	0.375	-0.284
DS0c	0.734	0.371
GP01	-0.172	-0.512
GP02	0.891	1.263
GP0c	-0.023	-0.614
NOD	0.083	-0.661
NZO	0.09	0.423
PWK	0.249	0.436
H37Rv_KO_CtpC	0.0	-0.325
H37Rv_KO_CtpD	0.502	-1.413
H37Rv_KO_Rv1272	-0.419	-0.731
H37Rv_KO_SugABC	0.464	0.293
H37Rv_KO_MbtN	-0.572	-1.175
Trans05	-0.831	-1.426
macrophage_unactivated	-0.145	1.061
IL1	0.356	0.516
Rapamycin	0.816	0.819
Tcell	0.264	0.704
GMCSF	0.343	0.66
IFNab	0.024	0.472
IFNg	0.735	1.43
IFNg_GMCSF1	0.311	0.525
Rv1432_day32	0.184	0.716
Rv1565c_day32	0.22	0.559
secA2_input	0.415	0.956
delta_Rv3594	0.118	-0.482
delta_Rv3717	0.097	-0.831
delta_Rv3811	0.207	0.28
delta_Rv0954	0.921	0.6
PonA1	0.619	0.88
EccD1_KO	0.105	0.132
EspI_KO	0.151	0.294
PE35_KO	0.347	0.163
PPE68_KO	0.102	-0.298
glycerol2	0.893	-0.081
lignocerate	1.007	0.208
oleate	0.635	0.086
phosphatidylcholine	1.091	0.189
acetate	0.018	0.367
glucAc	0.309	0.069
Rv0950ko	-0.492	0.847
Rv1096ko	0.232	1.252
Rv3684ko	0.383	1.588
delta_otsA_trehalose	-0.413	-1.548