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 Rv3370c/dnaE2:

update plot	correlation	link to info on gene
Rv1065/-	(cc=0.5386)	info on Rv1065/-
Rv3585/radA	(cc=0.5088)	info on Rv3585/radA
Rv1290c/-	(cc=0.4867)	info on Rv1290c/-
Rv0976c/-	(cc=0.4842)	info on Rv0976c/-
Rv1791/PE19	(cc=0.4656)	info on Rv1791/PE19
Rv3866/espG1	(cc=0.4499)	info on Rv3866/espG1
Rv3174/-	(cc=0.4466)	info on Rv3174/-
Rv0532/PE_PGRS6	(cc=0.4446)	info on Rv0532/PE_PGRS6
Rv1785c/cyp143	(cc=0.4438)	info on Rv1785c/cyp143
Rv0869c/moaA2	(cc=0.4386)	info on Rv0869c/moaA2

Correlation of Rv3370c/dnaE2 with Rv0976c/-

Normalized LFCs for Rv3370c/dnaE2:
(description and provenance of datasets)

	Rv3370c/dnaE2	Rv0976c/-
Fe_supp_jason_reseq	-0.33	-0.526
low_pH_jason_reseq	0.353	-0.35
NO_jason_reseq	0.042	-0.123
B6_jason_reseq	-0.83	-0.727
MHCII_jason_reseq	0.062	-0.068
Isoniazid02	1.292	0.987
Rifampicin4	0.441	0.777
Ethambutol3	2.253	0.981
Meropenem3	1.745	0.927
Vancomycin16	0.276	0.294
Rv2680_day32	-0.442	-0.912
H37Rv_KO_MarP	0.721	0.5
hypoxia_3wks	-0.299	-0.239
hypoxia_6wks	-0.731	-0.42
glycerol	0.6	1.347
cholesterol	0.322	0.818
AJ	0.328	0.637
Bibs02	-0.517	-0.456
Bibs02c	-0.211	0.421
BL6	0.25	-0.918
BL6a	-0.112	0.306
BXD01	0.168	-0.061
BXD010	0.313	0.0
BXD011	-0.383	0.671
BXD03	0.315	0.037
BXD04	0.302	-0.058
BXD05	0.442	0.623
BXD06	-0.24	-0.063
BXD07	-0.038	-0.026
BXD08	-0.018	-0.013
BXD09	0.181	-0.209
CAST	0.325	0.464
CCcont	0.119	-0.661
DS01	-0.625	-0.022
DS02	0.145	0.471
DS04	0.027	0.139
DS0c	-0.574	0.137
GP01	0.585	0.807
GP02	0.426	1.868
GP0c	0.598	0.749
NOD	-0.194	0.802
NZO	0.42	0.126
PWK	-0.519	0.124
H37Rv_KO_CtpC	0.581	1.161
H37Rv_KO_CtpD	0.267	0.34
H37Rv_KO_Rv1272	0.344	-0.983
H37Rv_KO_SugABC	0.231	-0.466
H37Rv_KO_MbtN	-0.136	-0.307
Trans05	0.416	0.702
macrophage_unactivated	0.0	-0.713
IL1	-0.151	0.899
Rapamycin	0.049	0.568
Tcell	0.052	0.469
GMCSF	1.03	-0.124
IFNab	-0.154	-0.218
IFNg	-0.275	-0.224
IFNg_GMCSF1	0.852	0.248
Rv1432_day32	0.038	0.0
Rv1565c_day32	-0.371	0.534
secA2_input	0.207	0.756
delta_Rv3594	0.211	-0.307
delta_Rv3717	-0.023	-0.357
delta_Rv3811	0.3	-0.744
delta_Rv0954	0.156	-0.313
PonA1	0.196	-0.014
EccD1_KO	0.214	1.0
EspI_KO	-0.145	0.083
PE35_KO	0.327	0.408
PPE68_KO	0.688	0.819
glycerol2	0.177	0.203
lignocerate	0.313	-0.041
oleate	0.364	0.773
phosphatidylcholine	0.293	0.388
acetate	0.238	0.11
glucAc	-0.02	-0.649
Rv0950ko	0.567	0.398
Rv1096ko	1.155	1.134
Rv3684ko	0.563	0.953
delta_otsA_trehalose	-0.321	-0.368