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 Rv3741c/-:

update plot	correlation	link to info on gene
Rv1711/-	(cc=0.5046)	info on Rv1711/-
Rv3905c/esxF	(cc=0.4942)	info on Rv3905c/esxF
Rv0757/phoP	(cc=0.4652)	info on Rv0757/phoP
Rv2310/-	(cc=0.4575)	info on Rv2310/-
Rv3748/-	(cc=0.4514)	info on Rv3748/-
Rv2581c/-	(cc=0.4504)	info on Rv2581c/-
Rv0262c/aac	(cc=0.4295)	info on Rv0262c/aac
Rv3175/-	(cc=0.4288)	info on Rv3175/-
Rv2548A/-	(cc=0.4252)	info on Rv2548A/-
Rv0943c/-	(cc=0.4173)	info on Rv0943c/-

Correlation of Rv3741c/- with Rv3748/-

Normalized LFCs for Rv3741c/-:
(description and provenance of datasets)

	Rv3741c/-	Rv3748/-
Fe_supp_jason_reseq	0.341	-1.045
low_pH_jason_reseq	-0.241	-0.038
NO_jason_reseq	-0.801	-1.985
B6_jason_reseq	0.089	-1.097
MHCII_jason_reseq	-0.455	-0.578
Isoniazid02	0.079	0.704
Rifampicin4	0.092	0.336
Ethambutol3	1.434	0.734
Meropenem3	-0.05	0.343
Vancomycin16	0.196	0.414
Rv2680_day32	0.399	2.69
H37Rv_KO_MarP	0.114	0.288
hypoxia_3wks	-0.439	-0.542
hypoxia_6wks	0.301	-0.436
glycerol	-0.407	-2.319
cholesterol	0.039	-1.309
AJ	-0.113	0.318
Bibs02	-0.592	-0.121
Bibs02c	-0.696	1.094
BL6	0.025	-0.776
BL6a	-0.027	1.274
BXD01	-0.169	-0.277
BXD010	-0.475	-0.597
BXD011	0.018	-0.423
BXD03	-0.228	-0.365
BXD04	0.364	-0.99
BXD05	0.483	-1.975
BXD06	-0.037	-0.269
BXD07	0.4	0.062
BXD08	-0.018	0.354
BXD09	0.324	-0.331
CAST	-0.445	-1.208
CCcont	0.303	0.119
DS01	0.505	-0.044
DS02	0.03	0.827
DS04	-0.164	0.235
DS0c	-0.509	-0.979
GP01	-0.973	-0.489
GP02	-0.626	0.215
GP0c	-0.942	1.364
NOD	-0.967	0.5
NZO	-1.263	0.107
PWK	-1.475	-0.092
H37Rv_KO_CtpC	0.011	1.278
H37Rv_KO_CtpD	-0.107	1.43
H37Rv_KO_Rv1272	-1.813	-1.337
H37Rv_KO_SugABC	-0.184	-0.939
H37Rv_KO_MbtN	0.232	0.424
Trans05	-0.536	-1.823
macrophage_unactivated	-0.076	-0.893
IL1	0.184	-0.353
Rapamycin	0.675	-0.868
Tcell	-0.026	-0.811
GMCSF	-0.127	0.325
IFNab	0.478	0.293
IFNg	-0.521	-1.251
IFNg_GMCSF1	0.05	-0.625
Rv1432_day32	0.872	1.271
Rv1565c_day32	-0.362	0.777
secA2_input	0.302	-0.684
delta_Rv3594	-2.14	-2.582
delta_Rv3717	-1.552	-2.931
delta_Rv3811	-0.669	-2.477
delta_Rv0954	-1.243	-2.49
PonA1	-0.21	-0.762
EccD1_KO	1.006	0.345
EspI_KO	0.707	1.058
PE35_KO	0.117	-0.718
PPE68_KO	0.339	-0.678
glycerol2	0.39	1.171
lignocerate	0.553	1.336
oleate	0.323	0.425
phosphatidylcholine	0.147	1.099
acetate	0.407	1.219
glucAc	0.021	1.197
Rv0950ko	1.273	0.422
Rv1096ko	0.492	0.718
Rv3684ko	1.601	0.874
delta_otsA_trehalose	-0.527	0.691