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 Rv1000c/-

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

	Rv0605/-	Rv1000c/-
Fe_supp_jason_reseq	-0.995	-1.361
low_pH_jason_reseq	-0.028	-2.546
NO_jason_reseq	-0.215	-0.197
B6_jason_reseq	-0.115	-0.576
MHCII_jason_reseq	0.297	-0.576
Isoniazid02	-0.274	-1.963
Rifampicin4	0.195	0.384
Ethambutol3	-0.371	-1.688
Meropenem3	-0.589	-1.517
Vancomycin16	-0.119	-0.584
Rv2680_day32	-0.777	-1.602
H37Rv_KO_MarP	0.391	0.138
hypoxia_3wks	-0.159	0.06
hypoxia_6wks	-0.478	0.566
glycerol	0.127	0.127
cholesterol	0.526	0.507
AJ	-0.207	0.45
Bibs02	-0.038	-0.091
Bibs02c	0.708	0.073
BL6	0.372	0.353
BL6a	0.194	-0.324
BXD01	0.018	-0.594
BXD010	-0.298	0.196
BXD011	1.443	0.672
BXD03	0.08	0.287
BXD04	-0.205	-0.76
BXD05	0.244	-0.145
BXD06	0.109	-0.125
BXD07	0.549	0.244
BXD08	0.241	-0.345
BXD09	0.128	-0.379
CAST	-0.319	-0.229
CCcont	0.223	-0.888
DS01	-0.099	0.542
DS02	0.117	0.569
DS04	-0.115	0.52
DS0c	0.165	0.608
GP01	0.185	0.172
GP02	0.345	0.497
GP0c	0.099	-0.196
NOD	0.22	0.477
NZO	0.152	0.458
PWK	-0.041	-0.345
H37Rv_KO_CtpC	-0.399	0.211
H37Rv_KO_CtpD	1.48	0.678
H37Rv_KO_Rv1272	-0.807	-0.644
H37Rv_KO_SugABC	0.127	1.463
H37Rv_KO_MbtN	-0.069	0.647
Trans05	-0.126	-0.157
macrophage_unactivated	0.306	-0.199
IL1	1.323	0.789
Rapamycin	1.335	0.657
Tcell	0.316	0.235
GMCSF	0.919	1.751
IFNab	0.493	0.323
IFNg	0.583	1.475
IFNg_GMCSF1	0.786	1.335
Rv1432_day32	0.348	1.551
Rv1565c_day32	0.022	0.607
secA2_input	0.011	-1.032
delta_Rv3594	-0.503	-0.413
delta_Rv3717	0.186	-0.417
delta_Rv3811	-0.778	-0.587
delta_Rv0954	-0.32	-0.115
PonA1	-0.83	-0.262
EccD1_KO	0.714	1.447
EspI_KO	0.553	1.805
PE35_KO	1.275	0.732
PPE68_KO	0.733	1.113
glycerol2	0.502	-0.147
lignocerate	1.359	-0.136
oleate	-0.024	0.405
phosphatidylcholine	0.926	0.21
acetate	0.638	-0.82
glucAc	1.051	-0.624
Rv0950ko	0.847	0.22
Rv1096ko	1.056	0.715
Rv3684ko	1.205	-0.639
delta_otsA_trehalose	-0.234	-0.104