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 Rv2955c/-:

update plot	correlation	link to info on gene
Rv2293c/-	(cc=0.5756)	info on Rv2293c/-
Rv1869c/-	(cc=0.5335)	info on Rv1869c/-
Rv2367c/-	(cc=0.5117)	info on Rv2367c/-
Rv2867c/-	(cc=0.4896)	info on Rv2867c/-
Rv1251c/-	(cc=0.4841)	info on Rv1251c/-
Rv2041c/-	(cc=0.4663)	info on Rv2041c/-
Rv2303c/-	(cc=0.4461)	info on Rv2303c/-
Rv3479/-	(cc=0.4372)	info on Rv3479/-
Rv0149/-	(cc=0.4276)	info on Rv0149/-
Rv0990c/-	(cc=0.4227)	info on Rv0990c/-

Correlation of Rv2955c/- with Rv1251c/-

Normalized LFCs for Rv2955c/-:
(description and provenance of datasets)

	Rv2955c/-	Rv1251c/-
Fe_supp_jason_reseq	-0.931	-0.343
low_pH_jason_reseq	0.649	0.435
NO_jason_reseq	-0.026	0.572
B6_jason_reseq	-0.206	0.611
MHCII_jason_reseq	0.575	1.169
Isoniazid02	0.185	0.469
Rifampicin4	0.644	0.184
Ethambutol3	0.66	0.635
Meropenem3	2.825	1.521
Vancomycin16	0.162	-0.125
Rv2680_day32	-0.117	-0.822
H37Rv_KO_MarP	-0.063	0.251
hypoxia_3wks	0.251	-0.116
hypoxia_6wks	0.0	0.029
glycerol	0.87	0.418
cholesterol	0.101	0.343
AJ	0.511	0.41
Bibs02	0.576	0.433
Bibs02c	-0.189	0.541
BL6	-0.258	0.171
BL6a	-0.118	0.271
BXD01	0.396	0.0
BXD010	0.326	-0.378
BXD011	-0.417	-0.257
BXD03	-0.08	-0.592
BXD04	0.509	0.0
BXD05	0.256	0.036
BXD06	-0.059	-0.494
BXD07	-0.071	-0.326
BXD08	0.541	-0.037
BXD09	-0.01	-0.414
CAST	-0.102	0.143
CCcont	-0.183	-0.173
DS01	-0.233	0.66
DS02	0.454	0.594
DS04	0.096	0.762
DS0c	0.181	0.561
GP01	-0.893	-0.221
GP02	0.041	-0.889
GP0c	-0.118	-0.464
NOD	0.033	0.159
NZO	0.802	0.399
PWK	0.466	0.392
H37Rv_KO_CtpC	0.091	-0.076
H37Rv_KO_CtpD	0.218	-0.608
H37Rv_KO_Rv1272	-1.094	-0.135
H37Rv_KO_SugABC	0.441	0.592
H37Rv_KO_MbtN	0.547	0.174
Trans05	0.473	0.0
macrophage_unactivated	-0.877	-0.309
IL1	0.107	-0.193
Rapamycin	-0.169	-0.049
Tcell	-0.661	-0.052
GMCSF	-0.048	0.203
IFNab	-0.52	-0.508
IFNg	-0.072	-0.043
IFNg_GMCSF1	0.057	-0.258
Rv1432_day32	0.9	0.0
Rv1565c_day32	-1.208	0.635
secA2_input	-0.099	-0.348
delta_Rv3594	-0.288	0.162
delta_Rv3717	-0.677	0.277
delta_Rv3811	-0.464	0.106
delta_Rv0954	0.111	-0.147
PonA1	-0.466	-0.178
EccD1_KO	0.194	0.97
EspI_KO	1.027	0.633
PE35_KO	0.968	0.368
PPE68_KO	0.937	0.653
glycerol2	-0.722	-0.126
lignocerate	-0.887	0.213
oleate	-0.305	-0.264
phosphatidylcholine	-0.612	0.167
acetate	-1.006	0.02
glucAc	-0.933	0.012
Rv0950ko	-0.823	-0.772
Rv1096ko	-0.283	0.0
Rv3684ko	-1.307	-0.432
delta_otsA_trehalose	-0.081	-0.232