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 Rv3827c/-:

update plot	correlation	link to info on gene
Rv0764c/cyp51	(cc=0.4964)	info on Rv0764c/cyp51
Rv3328c/sigJ	(cc=0.4959)	info on Rv3328c/sigJ
Rv1221/sigE	(cc=0.4885)	info on Rv1221/sigE
Rv1036c/-	(cc=0.4717)	info on Rv1036c/-
Rv3038c/-	(cc=0.4559)	info on Rv3038c/-
Rv2741/PE_PGRS47	(cc=0.4553)	info on Rv2741/PE_PGRS47
Rv1953/vapC14	(cc=0.4423)	info on Rv1953/vapC14
Rv1916/aceAb	(cc=0.442)	info on Rv1916/aceAb
Rv1453/-	(cc=0.4415)	info on Rv1453/-
Rv3453/-	(cc=0.4361)	info on Rv3453/-

Correlation of Rv3827c/- with Rv0764c/cyp51

Normalized LFCs for Rv3827c/-:
(description and provenance of datasets)

	Rv3827c/-	Rv0764c/cyp51
Fe_supp_jason_reseq	0.074	-0.128
low_pH_jason_reseq	-0.489	-0.592
NO_jason_reseq	0.063	-0.213
B6_jason_reseq	0.078	0.603
MHCII_jason_reseq	0.155	-0.366
Isoniazid02	-0.102	0.383
Rifampicin4	0.403	0.344
Ethambutol3	-0.085	0.297
Meropenem3	0.379	0.543
Vancomycin16	0.464	0.284
Rv2680_day32	-0.041	-0.749
H37Rv_KO_MarP	0.487	1.054
hypoxia_3wks	0.04	1.057
hypoxia_6wks	0.04	0.528
glycerol	0.18	-0.904
cholesterol	0.194	0.463
AJ	-0.227	1.123
Bibs02	-0.046	0.195
Bibs02c	-0.352	0.847
BL6	-0.507	-1.52
BL6a	-0.363	-0.385
BXD01	-0.219	-0.101
BXD010	-0.161	-1.483
BXD011	-0.493	-0.607
BXD03	0.073	-1.084
BXD04	-0.227	-0.786
BXD05	-0.277	-1.222
BXD06	-0.435	-0.825
BXD07	-0.393	-1.003
BXD08	-0.589	-0.486
BXD09	-0.582	-1.098
CAST	-0.491	0.377
CCcont	-0.578	-0.923
DS01	1.03	1.239
DS02	0.624	1.002
DS04	0.184	1.029
DS0c	1.075	1.812
GP01	0.56	0.857
GP02	-0.33	-0.315
GP0c	-0.348	-0.024
NOD	-0.345	0.732
NZO	-0.051	1.397
PWK	-0.219	0.306
H37Rv_KO_CtpC	-0.688	-0.061
H37Rv_KO_CtpD	0.845	0.505
H37Rv_KO_Rv1272	-0.138	0.995
H37Rv_KO_SugABC	-0.298	0.456
H37Rv_KO_MbtN	-0.99	-0.404
Trans05	0.265	0.025
macrophage_unactivated	-0.243	0.388
IL1	-0.472	-0.724
Rapamycin	0.129	-0.988
Tcell	-0.596	-0.215
GMCSF	-0.42	-0.644
IFNab	-0.517	-1.221
IFNg	-0.267	-1.08
IFNg_GMCSF1	-0.39	-0.314
Rv1432_day32	0.416	0.0
Rv1565c_day32	0.232	0.199
secA2_input	0.299	-0.283
delta_Rv3594	0.353	0.223
delta_Rv3717	0.137	0.184
delta_Rv3811	0.584	1.509
delta_Rv0954	-0.541	0.293
PonA1	0.328	0.566
EccD1_KO	0.395	-0.27
EspI_KO	-0.031	0.134
PE35_KO	0.586	-0.19
PPE68_KO	0.861	-0.051
glycerol2	0.076	0.311
lignocerate	-0.426	0.013
oleate	0.581	0.611
phosphatidylcholine	0.076	0.451
acetate	-0.7	-0.482
glucAc	-0.728	-1.034
Rv0950ko	-0.763	0.0
Rv1096ko	-1.321	0.139
Rv3684ko	-0.259	-0.426
delta_otsA_trehalose	0.202	0.564