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 Rv1042c/-:

update plot	correlation	link to info on gene
Rv1149/-	(cc=0.8949)	info on Rv1149/-
Rv1041c/-	(cc=0.6823)	info on Rv1041c/-
Rv1135c/PPE16	(cc=0.63)	info on Rv1135c/PPE16
Rv3144c/PPE52	(cc=0.4829)	info on Rv3144c/PPE52
Rv0540/-	(cc=0.4504)	info on Rv0540/-
Rv0578c/PE_PGRS7	(cc=0.4456)	info on Rv0578c/PE_PGRS7
Rv0546c/-	(cc=0.4453)	info on Rv0546c/-
Rv1071c/echA9	(cc=0.4413)	info on Rv1071c/echA9
Rv0621/-	(cc=0.4403)	info on Rv0621/-
Rv0755c/PPE12	(cc=0.4396)	info on Rv0755c/PPE12

Correlation of Rv1042c/- with Rv1149/-

Normalized LFCs for Rv1042c/-:
(description and provenance of datasets)

	Rv1042c/-	Rv1149/-
Fe_supp_jason_reseq	-1.46	-1.566
low_pH_jason_reseq	-1.064	-1.532
NO_jason_reseq	-0.78	-0.37
B6_jason_reseq	0.796	0.532
MHCII_jason_reseq	0.763	0.553
Isoniazid02	0.451	0.048
Rifampicin4	1.914	1.235
Ethambutol3	0.814	0.495
Meropenem3	0.994	0.767
Vancomycin16	1.292	0.499
Rv2680_day32	-0.571	-0.613
H37Rv_KO_MarP	-0.032	0.073
hypoxia_3wks	1.049	1.236
hypoxia_6wks	1.33	1.347
glycerol	0.168	0.255
cholesterol	0.131	0.146
AJ	0.734	0.813
Bibs02	0.372	0.287
Bibs02c	1.84	1.363
BL6	-0.98	-0.264
BL6a	1.413	0.913
BXD01	-0.009	0.281
BXD010	0.413	0.804
BXD011	-0.323	-0.142
BXD03	0.618	0.807
BXD04	-0.744	-0.546
BXD05	0.39	0.505
BXD06	0.075	0.326
BXD07	0.171	0.399
BXD08	-0.8	-0.707
BXD09	0.32	0.493
CAST	0.692	0.232
CCcont	-1.018	-0.865
DS01	1.09	0.743
DS02	0.922	0.432
DS04	0.188	0.195
DS0c	0.592	0.03
GP01	-2.405	-2.51
GP02	-0.64	-1.23
GP0c	-0.317	-0.676
NOD	1.866	1.751
NZO	0.058	0.0
PWK	0.915	0.895
H37Rv_KO_CtpC	3.218	3.594
H37Rv_KO_CtpD	1.339	1.213
H37Rv_KO_Rv1272	0.01	0.01
H37Rv_KO_SugABC	-1.494	-1.653
H37Rv_KO_MbtN	0.877	0.607
Trans05	0.698	0.951
macrophage_unactivated	-1.932	-0.432
IL1	-0.033	0.059
Rapamycin	0.034	0.092
Tcell	-0.551	0.254
GMCSF	-0.383	0.106
IFNab	-0.692	-0.184
IFNg	-1.187	-0.136
IFNg_GMCSF1	-0.962	-0.063
Rv1432_day32	0.868	0.658
Rv1565c_day32	0.485	1.054
secA2_input	1.481	0.734
delta_Rv3594	0.239	0.165
delta_Rv3717	1.402	1.187
delta_Rv3811	0.824	0.745
delta_Rv0954	0.899	0.933
PonA1	-0.431	-0.591
EccD1_KO	1.095	1.885
EspI_KO	1.315	1.6
PE35_KO	1.423	1.671
PPE68_KO	1.689	2.451
glycerol2	-0.495	-0.719
lignocerate	-0.631	-0.865
oleate	-0.038	-0.293
phosphatidylcholine	-0.242	-0.629
acetate	0.0	-0.547
glucAc	0.082	-0.572
Rv0950ko	0.597	0.859
Rv1096ko	1.252	1.517
Rv3684ko	-0.239	0.933
delta_otsA_trehalose	-1.073	-0.873