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 Rv1134/-:

update plot	correlation	link to info on gene
Rv2792c/-	(cc=0.4668)	info on Rv2792c/-
Rv0642c/mmaA4	(cc=0.4534)	info on Rv0642c/mmaA4
Rv2161c/-	(cc=0.437)	info on Rv2161c/-
Rv2655c/-	(cc=0.4283)	info on Rv2655c/-
Rv1116/-	(cc=0.4247)	info on Rv1116/-
Rv1960c/parD1	(cc=0.4214)	info on Rv1960c/parD1
Rv2071c/cobM	(cc=0.4211)	info on Rv2071c/cobM
Rv0279c/PE_PGRS4	(cc=0.4163)	info on Rv0279c/PE_PGRS4
Rv2510c/-	(cc=0.4157)	info on Rv2510c/-
Rv2735c/-	(cc=0.4154)	info on Rv2735c/-

Correlation of Rv1134/- with Rv2735c/-

Normalized LFCs for Rv1134/-:
(description and provenance of datasets)

	Rv1134/-	Rv2735c/-
Fe_supp_jason_reseq	-0.077	0.731
low_pH_jason_reseq	-1.077	0.418
NO_jason_reseq	0.407	0.249
B6_jason_reseq	-1.197	-0.614
MHCII_jason_reseq	0.046	-0.111
Isoniazid02	0.57	-0.067
Rifampicin4	0.141	0.192
Ethambutol3	0.349	-0.068
Meropenem3	0.738	0.434
Vancomycin16	0.138	0.048
Rv2680_day32	0.07	0.554
H37Rv_KO_MarP	0.255	-0.341
hypoxia_3wks	-0.447	0.315
hypoxia_6wks	0.545	0.395
glycerol	1.415	0.089
cholesterol	-0.346	-0.343
AJ	1.16	0.671
Bibs02	-0.669	0.631
Bibs02c	0.767	0.58
BL6	-0.318	0.952
BL6a	0.776	1.522
BXD01	0.376	0.742
BXD010	1.085	1.552
BXD011	0.655	1.348
BXD03	0.031	1.483
BXD04	-0.538	1.288
BXD05	1.922	1.268
BXD06	0.587	1.007
BXD07	0.662	1.504
BXD08	1.047	0.557
BXD09	0.287	1.226
CAST	0.21	0.586
CCcont	0.069	0.515
DS01	0.163	0.941
DS02	-0.132	0.526
DS04	0.791	1.122
DS0c	-0.869	0.335
GP01	1.044	1.8
GP02	0.0	1.821
GP0c	0.351	1.168
NOD	0.13	0.571
NZO	-0.334	0.03
PWK	-0.412	0.567
H37Rv_KO_CtpC	0.425	1.627
H37Rv_KO_CtpD	-0.622	1.492
H37Rv_KO_Rv1272	1.842	1.96
H37Rv_KO_SugABC	-1.587	0.664
H37Rv_KO_MbtN	0.8	1.849
Trans05	1.49	1.918
macrophage_unactivated	-1.24	0.562
IL1	0.065	0.4
Rapamycin	-0.31	0.107
Tcell	-1.248	0.44
GMCSF	-0.62	-0.259
IFNab	-0.16	0.441
IFNg	-0.82	0.214
IFNg_GMCSF1	-0.217	0.591
Rv1432_day32	0.361	0.557
Rv1565c_day32	-1.496	0.257
secA2_input	1.434	-0.379
delta_Rv3594	-0.569	1.195
delta_Rv3717	-0.282	0.39
delta_Rv3811	-0.132	0.9
delta_Rv0954	-0.08	0.236
PonA1	-0.711	0.426
EccD1_KO	-0.151	-0.526
EspI_KO	0.22	-0.154
PE35_KO	-0.645	-0.525
PPE68_KO	0.144	-0.48
glycerol2	-0.594	-0.359
lignocerate	-0.979	-0.233
oleate	0.675	-0.098
phosphatidylcholine	-0.619	-0.08
acetate	-0.735	-0.214
glucAc	-0.653	-0.488
Rv0950ko	0.247	0.528
Rv1096ko	-0.54	-0.48
Rv3684ko	-1.729	-0.147
delta_otsA_trehalose	1.005	0.357