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 Rv0605/-:

update plot	correlation	link to info on gene
Rv3292/-	(cc=0.5317)	info on Rv3292/-
Rv2756c/hsdM	(cc=0.5198)	info on Rv2756c/hsdM
Rv1175c/fadH	(cc=0.488)	info on Rv1175c/fadH
Rv2634c/PE_PGRS46	(cc=0.483)	info on Rv2634c/PE_PGRS46
Rv1000c/-	(cc=0.4686)	info on Rv1000c/-
Rv2310/-	(cc=0.4612)	info on Rv2310/-
Rv2240c/-	(cc=0.4571)	info on Rv2240c/-
Rv3138/pflA	(cc=0.4519)	info on Rv3138/pflA
Rv1200/-	(cc=0.4481)	info on Rv1200/-
Rv0441c/-	(cc=0.443)	info on Rv0441c/-

Correlation of Rv0605/- with Rv3138/pflA

Normalized LFCs for Rv0605/-:
(description and provenance of datasets)

	Rv0605/-	Rv3138/pflA
Fe_supp_jason_reseq	-0.995	-0.298
low_pH_jason_reseq	-0.028	0.089
NO_jason_reseq	-0.215	-0.06
B6_jason_reseq	-0.115	-0.658
MHCII_jason_reseq	0.297	-0.094
Isoniazid02	-0.274	0.153
Rifampicin4	0.195	-0.173
Ethambutol3	-0.371	0.358
Meropenem3	-0.589	-0.818
Vancomycin16	-0.119	-0.485
Rv2680_day32	-0.777	-0.696
H37Rv_KO_MarP	0.391	0.346
hypoxia_3wks	-0.159	-0.032
hypoxia_6wks	-0.478	-0.081
glycerol	0.127	-0.575
cholesterol	0.526	0.068
AJ	-0.207	0.425
Bibs02	-0.038	0.527
Bibs02c	0.708	0.582
BL6	0.372	0.17
BL6a	0.194	0.732
BXD01	0.018	0.703
BXD010	-0.298	0.479
BXD011	1.443	2.15
BXD03	0.08	0.39
BXD04	-0.205	0.702
BXD05	0.244	0.833
BXD06	0.109	0.587
BXD07	0.549	0.831
BXD08	0.241	0.054
BXD09	0.128	0.746
CAST	-0.319	-0.132
CCcont	0.223	0.454
DS01	-0.099	0.0
DS02	0.117	0.269
DS04	-0.115	-0.571
DS0c	0.165	0.36
GP01	0.185	0.456
GP02	0.345	0.077
GP0c	0.099	-0.103
NOD	0.22	-0.212
NZO	0.152	0.678
PWK	-0.041	0.772
H37Rv_KO_CtpC	-0.399	-0.241
H37Rv_KO_CtpD	1.48	-0.198
H37Rv_KO_Rv1272	-0.807	0.362
H37Rv_KO_SugABC	0.127	-0.155
H37Rv_KO_MbtN	-0.069	-0.113
Trans05	-0.126	0.469
macrophage_unactivated	0.306	1.275
IL1	1.323	0.736
Rapamycin	1.335	0.292
Tcell	0.316	0.489
GMCSF	0.919	0.57
IFNab	0.493	0.133
IFNg	0.583	0.454
IFNg_GMCSF1	0.786	0.877
Rv1432_day32	0.348	0.159
Rv1565c_day32	0.022	0.224
secA2_input	0.011	-0.366
delta_Rv3594	-0.503	-0.878
delta_Rv3717	0.186	-0.943
delta_Rv3811	-0.778	-0.665
delta_Rv0954	-0.32	0.12
PonA1	-0.83	-0.459
EccD1_KO	0.714	0.98
EspI_KO	0.553	0.268
PE35_KO	1.275	0.274
PPE68_KO	0.733	0.358
glycerol2	0.502	0.156
lignocerate	1.359	0.379
oleate	-0.024	0.021
phosphatidylcholine	0.926	0.328
acetate	0.638	-0.286
glucAc	1.051	-0.017
Rv0950ko	0.847	0.28
Rv1096ko	1.056	0.13
Rv3684ko	1.205	0.616
delta_otsA_trehalose	-0.234	0.181