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 Rv1760/-:

update plot	correlation	link to info on gene
Rv2351c/plcA	(cc=0.5895)	info on Rv2351c/plcA
Rv2025c/-	(cc=0.5707)	info on Rv2025c/-
Rv3784/-	(cc=0.5178)	info on Rv3784/-
Rv1527c/pks5	(cc=0.4985)	info on Rv1527c/pks5
Rv3294c/-	(cc=0.4861)	info on Rv3294c/-
Rv0336/-	(cc=0.4703)	info on Rv0336/-
Rv1618/tesB1	(cc=0.4698)	info on Rv1618/tesB1
Rv3367/PE_PGRS51	(cc=0.459)	info on Rv3367/PE_PGRS51
Rv2443/dctA	(cc=0.4576)	info on Rv2443/dctA
Rv1425/-	(cc=0.4574)	info on Rv1425/-

Correlation of Rv1760/- with Rv3294c/-

Normalized LFCs for Rv1760/-:
(description and provenance of datasets)

	Rv1760/-	Rv3294c/-
Fe_supp_jason_reseq	0.36	0.213
low_pH_jason_reseq	-1.173	0.11
NO_jason_reseq	0.333	-0.446
B6_jason_reseq	0.16	0.424
MHCII_jason_reseq	0.248	0.795
Isoniazid02	0.278	-0.179
Rifampicin4	0.016	-0.366
Ethambutol3	0.28	-0.288
Meropenem3	1.035	0.437
Vancomycin16	0.119	-0.424
Rv2680_day32	-0.408	-0.202
H37Rv_KO_MarP	-0.141	-0.038
hypoxia_3wks	-0.064	-0.024
hypoxia_6wks	0.098	-0.111
glycerol	0.176	-0.984
cholesterol	0.434	-0.209
AJ	0.745	0.21
Bibs02	0.065	0.454
Bibs02c	-0.07	0.409
BL6	0.0	-0.772
BL6a	-0.195	-0.043
BXD01	0.028	-0.343
BXD010	-0.168	-0.437
BXD011	0.041	-0.255
BXD03	-0.245	-0.189
BXD04	0.044	-0.506
BXD05	-0.117	-0.128
BXD06	-0.196	-0.416
BXD07	-0.306	-0.538
BXD08	0.298	-0.209
BXD09	-0.189	-0.162
CAST	0.405	0.307
CCcont	-0.106	-0.627
DS01	0.252	0.33
DS02	0.153	0.457
DS04	-0.056	0.156
DS0c	0.159	1.004
GP01	0.953	0.775
GP02	1.058	0.497
GP0c	0.478	0.144
NOD	0.849	0.955
NZO	0.63	0.507
PWK	0.529	0.453
H37Rv_KO_CtpC	0.162	-0.154
H37Rv_KO_CtpD	0.262	0.076
H37Rv_KO_Rv1272	0.751	0.663
H37Rv_KO_SugABC	-0.21	-0.138
H37Rv_KO_MbtN	0.494	0.211
Trans05	0.36	0.207
macrophage_unactivated	0.271	-0.3
IL1	-0.347	0.163
Rapamycin	-0.457	-0.064
Tcell	-0.339	-0.212
GMCSF	-0.032	-0.037
IFNab	-0.472	-0.172
IFNg	0.0	-0.374
IFNg_GMCSF1	0.83	0.421
Rv1432_day32	0.082	0.595
Rv1565c_day32	-0.125	0.24
secA2_input	-0.18	-0.538
delta_Rv3594	-0.067	0.07
delta_Rv3717	0.006	0.185
delta_Rv3811	0.071	-0.024
delta_Rv0954	0.317	0.243
PonA1	0.15	0.248
EccD1_KO	-0.622	-0.214
EspI_KO	-0.716	-0.319
PE35_KO	-0.365	-0.426
PPE68_KO	-0.301	-0.653
glycerol2	0.391	0.321
lignocerate	0.592	0.1
oleate	0.285	0.077
phosphatidylcholine	0.609	0.35
acetate	-0.101	-0.166
glucAc	0.213	-0.252
Rv0950ko	0.467	0.513
Rv1096ko	-0.106	0.531
Rv3684ko	0.151	0.537
delta_otsA_trehalose	0.432	1.61