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 Rv1929c/-:

update plot	correlation	link to info on gene
Rv1780/-	(cc=0.4605)	info on Rv1780/-
Rv2266/cyp124	(cc=0.3777)	info on Rv2266/cyp124
Rv0644c/mmaA2	(cc=0.3745)	info on Rv0644c/mmaA2
Rv3181c/-	(cc=0.3703)	info on Rv3181c/-
Rv1554/frdC	(cc=0.3601)	info on Rv1554/frdC
Rv1552/frdA	(cc=0.3579)	info on Rv1552/frdA
Rv1058/fadD14	(cc=0.355)	info on Rv1058/fadD14
Rv0088/-	(cc=0.3404)	info on Rv0088/-
Rv2173/idsA2	(cc=0.3362)	info on Rv2173/idsA2
Rv3112/moaD1	(cc=0.3346)	info on Rv3112/moaD1

Correlation of Rv1929c/- with Rv1552/frdA

Normalized LFCs for Rv1929c/-:
(description and provenance of datasets)

	Rv1929c/-	Rv1552/frdA
Fe_supp_jason_reseq	-1.299	-0.283
low_pH_jason_reseq	0.142	0.679
NO_jason_reseq	-0.845	0.097
B6_jason_reseq	-0.601	-0.246
MHCII_jason_reseq	0.576	-0.375
Isoniazid02	0.167	1.394
Rifampicin4	-0.054	0.057
Ethambutol3	0.392	1.083
Meropenem3	-0.073	-0.103
Vancomycin16	0.106	0.162
Rv2680_day32	1.782	0.071
H37Rv_KO_MarP	0.512	0.275
hypoxia_3wks	1.747	0.638
hypoxia_6wks	2.464	0.255
glycerol	0.521	0.0
cholesterol	0.898	0.219
AJ	0.165	1.106
Bibs02	0.216	0.474
Bibs02c	-0.182	0.196
BL6	-0.806	0.225
BL6a	0.178	0.244
BXD01	1.214	0.252
BXD010	0.441	0.379
BXD011	1.22	0.229
BXD03	0.775	-0.349
BXD04	-0.18	-0.345
BXD05	-0.742	0.106
BXD06	0.812	-0.067
BXD07	1.003	0.526
BXD08	-0.086	0.239
BXD09	0.98	0.252
CAST	-0.148	0.0
CCcont	-1.246	0.048
DS01	0.098	-0.2
DS02	-0.29	-0.852
DS04	-0.97	-0.032
DS0c	0.195	-0.427
GP01	1.263	0.577
GP02	0.686	0.216
GP0c	-0.027	0.369
NOD	0.225	1.185
NZO	0.397	0.889
PWK	-0.02	0.405
H37Rv_KO_CtpC	-0.581	0.824
H37Rv_KO_CtpD	0.064	1.188
H37Rv_KO_Rv1272	0.598	1.044
H37Rv_KO_SugABC	1.188	0.293
H37Rv_KO_MbtN	-1.162	0.491
Trans05	1.007	0.701
macrophage_unactivated	1.228	0.268
IL1	-0.988	0.605
Rapamycin	0.436	0.196
Tcell	1.193	0.538
GMCSF	-0.639	-0.058
IFNab	-1.007	-0.417
IFNg	-0.647	-0.305
IFNg_GMCSF1	-1.48	0.267
Rv1432_day32	-0.279	0.121
Rv1565c_day32	0.013	0.065
secA2_input	-1.191	-0.269
delta_Rv3594	0.835	0.358
delta_Rv3717	-0.048	-0.138
delta_Rv3811	0.754	0.402
delta_Rv0954	-0.672	0.326
PonA1	-1.111	-0.353
EccD1_KO	-0.418	0.122
EspI_KO	-0.508	0.787
PE35_KO	0.54	0.939
PPE68_KO	1.952	1.078
glycerol2	-0.497	0.0
lignocerate	4.317	-0.069
oleate	-0.459	0.2
phosphatidylcholine	-0.528	0.126
acetate	-1.503	0.03
glucAc	-1.255	0.128
Rv0950ko	-0.323	-0.326
Rv1096ko	-2.337	-0.73
Rv3684ko	-2.538	-1.343
delta_otsA_trehalose	-0.719	0.031