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 Rv2792c/-

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

	Rv1134/-	Rv2792c/-
Fe_supp_jason_reseq	-0.077	0.104
low_pH_jason_reseq	-1.077	-2.541
NO_jason_reseq	0.407	0.646
B6_jason_reseq	-1.197	-2.183
MHCII_jason_reseq	0.046	-2.462
Isoniazid02	0.57	1.362
Rifampicin4	0.141	0.19
Ethambutol3	0.349	2.607
Meropenem3	0.738	-0.277
Vancomycin16	0.138	0.69
Rv2680_day32	0.07	0.259
H37Rv_KO_MarP	0.255	0.313
hypoxia_3wks	-0.447	0.786
hypoxia_6wks	0.545	-0.081
glycerol	1.415	0.353
cholesterol	-0.346	1.321
AJ	1.16	-0.398
Bibs02	-0.669	-0.456
Bibs02c	0.767	1.449
BL6	-0.318	0.825
BL6a	0.776	2.274
BXD01	0.376	1.396
BXD010	1.085	1.793
BXD011	0.655	2.015
BXD03	0.031	1.751
BXD04	-0.538	0.972
BXD05	1.922	2.023
BXD06	0.587	1.533
BXD07	0.662	1.892
BXD08	1.047	1.177
BXD09	0.287	1.337
CAST	0.21	0.999
CCcont	0.069	1.058
DS01	0.163	1.993
DS02	-0.132	0.134
DS04	0.791	1.845
DS0c	-0.869	0.068
GP01	1.044	1.446
GP02	0.0	1.964
GP0c	0.351	2.515
NOD	0.13	1.022
NZO	-0.334	-0.269
PWK	-0.412	-1.026
H37Rv_KO_CtpC	0.425	0.488
H37Rv_KO_CtpD	-0.622	1.252
H37Rv_KO_Rv1272	1.842	2.241
H37Rv_KO_SugABC	-1.587	-1.047
H37Rv_KO_MbtN	0.8	-0.539
Trans05	1.49	0.861
macrophage_unactivated	-1.24	-0.142
IL1	0.065	-1.044
Rapamycin	-0.31	0.555
Tcell	-1.248	-0.567
GMCSF	-0.62	0.267
IFNab	-0.16	-1.179
IFNg	-0.82	0.82
IFNg_GMCSF1	-0.217	0.091
Rv1432_day32	0.361	0.302
Rv1565c_day32	-1.496	0.573
secA2_input	1.434	0.454
delta_Rv3594	-0.569	0.532
delta_Rv3717	-0.282	0.965
delta_Rv3811	-0.132	0.518
delta_Rv0954	-0.08	-0.404
PonA1	-0.711	-0.822
EccD1_KO	-0.151	-0.954
EspI_KO	0.22	0.616
PE35_KO	-0.645	0.443
PPE68_KO	0.144	-0.093
glycerol2	-0.594	0.844
lignocerate	-0.979	0.692
oleate	0.675	1.381
phosphatidylcholine	-0.619	1.522
acetate	-0.735	0.204
glucAc	-0.653	0.152
Rv0950ko	0.247	-2.325
Rv1096ko	-0.54	-0.271
Rv3684ko	-1.729	-2.06
delta_otsA_trehalose	1.005	0.847