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 Rv2821c/-:

update plot	correlation	link to info on gene
Rv3469c/mhpE	(cc=0.5439)	info on Rv3469c/mhpE
Rv0226c/-	(cc=0.5377)	info on Rv0226c/-
Rv1913/-	(cc=0.522)	info on Rv1913/-
Rv1352/-	(cc=0.5153)	info on Rv1352/-
Rv3217c/-	(cc=0.5094)	info on Rv3217c/-
Rv3127/-	(cc=0.5072)	info on Rv3127/-
Rv0297/PE_PGRS5	(cc=0.5039)	info on Rv0297/PE_PGRS5
Rv0278c/PE_PGRS3	(cc=0.5002)	info on Rv0278c/PE_PGRS3
Rv1550/fadD11	(cc=0.487)	info on Rv1550/fadD11
Rv0264c/-	(cc=0.4864)	info on Rv0264c/-

Correlation of Rv2821c/- with Rv3469c/mhpE

Normalized LFCs for Rv2821c/-:
(description and provenance of datasets)

	Rv2821c/-	Rv3469c/mhpE
Fe_supp_jason_reseq	0.314	0.638
low_pH_jason_reseq	0.296	0.147
NO_jason_reseq	-0.273	0.475
B6_jason_reseq	0.588	-0.681
MHCII_jason_reseq	-1.292	-0.486
Isoniazid02	-0.194	-0.239
Rifampicin4	0.523	0.317
Ethambutol3	-0.485	-0.277
Meropenem3	1.93	0.401
Vancomycin16	0.244	0.443
Rv2680_day32	1.795	0.177
H37Rv_KO_MarP	-0.076	0.412
hypoxia_3wks	-0.778	0.183
hypoxia_6wks	-0.441	-0.647
glycerol	-0.064	0.146
cholesterol	-0.063	0.01
AJ	0.277	-0.459
Bibs02	-0.314	-0.518
Bibs02c	0.15	0.267
BL6	0.535	-0.159
BL6a	0.466	0.253
BXD01	0.371	0.122
BXD010	-0.269	0.029
BXD011	-0.098	-0.412
BXD03	0.772	-0.745
BXD04	0.87	0.29
BXD05	0.575	-0.279
BXD06	0.055	-0.487
BXD07	0.112	-0.365
BXD08	0.244	0.068
BXD09	-0.14	-0.357
CAST	0.619	0.582
CCcont	0.852	-0.117
DS01	0.098	0.394
DS02	0.176	-0.296
DS04	0.304	0.707
DS0c	0.473	0.66
GP01	0.622	0.492
GP02	1.579	1.149
GP0c	0.471	0.305
NOD	0.093	-0.444
NZO	0.162	-0.75
PWK	0.462	-0.354
H37Rv_KO_CtpC	0.761	0.372
H37Rv_KO_CtpD	0.21	0.626
H37Rv_KO_Rv1272	1.23	0.406
H37Rv_KO_SugABC	0.697	-1.316
H37Rv_KO_MbtN	-0.487	-0.636
Trans05	0.883	1.122
macrophage_unactivated	0.505	-0.663
IL1	-0.831	-1.94
Rapamycin	-0.47	-0.961
Tcell	0.117	-0.639
GMCSF	-1.022	-0.481
IFNab	-1.572	-1.379
IFNg	-1.253	-1.451
IFNg_GMCSF1	-0.525	-0.277
Rv1432_day32	-0.261	0.918
Rv1565c_day32	-0.389	-0.704
secA2_input	-0.056	-0.066
delta_Rv3594	0.431	0.61
delta_Rv3717	0.081	-0.696
delta_Rv3811	0.757	-0.397
delta_Rv0954	0.049	0.129
PonA1	-0.504	-0.416
EccD1_KO	0.75	0.625
EspI_KO	-0.445	0.339
PE35_KO	0.508	0.394
PPE68_KO	0.192	0.634
glycerol2	1.24	1.254
lignocerate	1.789	1.344
oleate	-0.238	1.063
phosphatidylcholine	1.263	1.16
acetate	1.829	0.485
glucAc	1.276	0.463
Rv0950ko	0.256	0.021
Rv1096ko	-0.368	-0.169
Rv3684ko	-0.835	-0.138
delta_otsA_trehalose	0.535	-0.244