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 Rv0262c/aac

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

	Rv3741c/-	Rv0262c/aac
Fe_supp_jason_reseq	0.341	0.586
low_pH_jason_reseq	-0.241	-0.368
NO_jason_reseq	-0.801	0.391
B6_jason_reseq	0.089	-0.767
MHCII_jason_reseq	-0.455	-0.603
Isoniazid02	0.079	1.157
Rifampicin4	0.092	1.205
Ethambutol3	1.434	0.879
Meropenem3	-0.05	0.041
Vancomycin16	0.196	0.674
Rv2680_day32	0.399	2.426
H37Rv_KO_MarP	0.114	1.376
hypoxia_3wks	-0.439	0.044
hypoxia_6wks	0.301	0.495
glycerol	-0.407	-0.123
cholesterol	0.039	1.459
AJ	-0.113	0.089
Bibs02	-0.592	0.902
Bibs02c	-0.696	-0.041
BL6	0.025	-0.58
BL6a	-0.027	1.53
BXD01	-0.169	0.877
BXD010	-0.475	2.333
BXD011	0.018	1.184
BXD03	-0.228	2.031
BXD04	0.364	0.396
BXD05	0.483	2.602
BXD06	-0.037	1.524
BXD07	0.4	2.382
BXD08	-0.018	1.136
BXD09	0.324	1.659
CAST	-0.445	0.0
CCcont	0.303	0.623
DS01	0.505	0.578
DS02	0.03	0.083
DS04	-0.164	1.307
DS0c	-0.509	-1.796
GP01	-0.973	-1.721
GP02	-0.626	-1.158
GP0c	-0.942	-2.018
NOD	-0.967	0.129
NZO	-1.263	-1.331
PWK	-1.475	0.112
H37Rv_KO_CtpC	0.011	2.607
H37Rv_KO_CtpD	-0.107	0.049
H37Rv_KO_Rv1272	-1.813	-1.592
H37Rv_KO_SugABC	-0.184	0.387
H37Rv_KO_MbtN	0.232	0.88
Trans05	-0.536	0.853
macrophage_unactivated	-0.076	0.085
IL1	0.184	0.0
Rapamycin	0.675	0.826
Tcell	-0.026	-0.427
GMCSF	-0.127	0.977
IFNab	0.478	1.261
IFNg	-0.521	0.679
IFNg_GMCSF1	0.05	-0.113
Rv1432_day32	0.872	0.299
Rv1565c_day32	-0.362	-0.194
secA2_input	0.302	2.336
delta_Rv3594	-2.14	-0.906
delta_Rv3717	-1.552	0.05
delta_Rv3811	-0.669	0.019
delta_Rv0954	-1.243	-0.282
PonA1	-0.21	-0.779
EccD1_KO	1.006	0.97
EspI_KO	0.707	-0.271
PE35_KO	0.117	-0.403
PPE68_KO	0.339	-0.442
glycerol2	0.39	1.424
lignocerate	0.553	1.46
oleate	0.323	0.529
phosphatidylcholine	0.147	1.13
acetate	0.407	1.493
glucAc	0.021	0.412
Rv0950ko	1.273	-0.145
Rv1096ko	0.492	-0.193
Rv3684ko	1.601	0.052
delta_otsA_trehalose	-0.527	-2.049