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 Rv0680c/-:

update plot	correlation	link to info on gene
Rv1808/PPE32	(cc=0.4326)	info on Rv1808/PPE32
Rv2715/-	(cc=0.4292)	info on Rv2715/-
Rv1020/mfd	(cc=0.4097)	info on Rv1020/mfd
Rv0459/-	(cc=0.4017)	info on Rv0459/-
Rv2807/-	(cc=0.4004)	info on Rv2807/-
Rv1526c/-	(cc=0.3975)	info on Rv1526c/-
Rv2005c/-	(cc=0.3963)	info on Rv2005c/-
Rv2673/aftC	(cc=0.3899)	info on Rv2673/aftC
Rv1809/PPE33	(cc=0.3894)	info on Rv1809/PPE33
Rv1551/plsB1	(cc=0.3813)	info on Rv1551/plsB1

Correlation of Rv0680c/- with Rv1551/plsB1

Normalized LFCs for Rv0680c/-:
(description and provenance of datasets)

	Rv0680c/-	Rv1551/plsB1
Fe_supp_jason_reseq	-0.316	0.923
low_pH_jason_reseq	-0.587	-0.266
NO_jason_reseq	-0.045	-0.079
B6_jason_reseq	-2.402	-1.362
MHCII_jason_reseq	-2.31	-0.572
Isoniazid02	-1.157	-0.127
Rifampicin4	-0.774	-0.799
Ethambutol3	-0.886	-0.186
Meropenem3	-1.205	0.818
Vancomycin16	-0.417	-0.164
Rv2680_day32	-0.971	-0.362
H37Rv_KO_MarP	0.676	-0.041
hypoxia_3wks	-0.335	0.467
hypoxia_6wks	-1.516	0.501
glycerol	-0.886	0.0
cholesterol	2.45	0.54
AJ	-1.439	0.471
Bibs02	1.544	-0.216
Bibs02c	1.71	0.077
BL6	1.016	1.452
BL6a	1.002	1.027
BXD01	-0.609	0.776
BXD010	0.007	0.664
BXD011	0.387	1.181
BXD03	-0.657	0.654
BXD04	0.245	1.037
BXD05	0.576	0.698
BXD06	0.35	0.992
BXD07	-0.228	1.126
BXD08	-0.916	0.874
BXD09	0.154	1.168
CAST	-1.281	-0.043
CCcont	0.147	0.858
DS01	-0.654	0.368
DS02	-0.039	0.474
DS04	1.435	0.846
DS0c	0.946	0.662
GP01	0.426	1.403
GP02	0.307	2.109
GP0c	1.167	1.501
NOD	2.833	-0.085
NZO	-2.195	-0.114
PWK	-0.935	-0.037
H37Rv_KO_CtpC	1.71	1.161
H37Rv_KO_CtpD	-0.391	0.714
H37Rv_KO_Rv1272	-0.632	1.832
H37Rv_KO_SugABC	1.078	1.585
H37Rv_KO_MbtN	0.108	1.287
Trans05	0.989	1.442
macrophage_unactivated	-1.436	0.29
IL1	2.159	0.602
Rapamycin	0.509	1.169
Tcell	0.512	0.85
GMCSF	-0.676	0.473
IFNab	0.299	0.925
IFNg	-0.027	0.786
IFNg_GMCSF1	-0.647	0.487
Rv1432_day32	-1.276	-0.587
Rv1565c_day32	-2.515	0.665
secA2_input	0.473	-0.983
delta_Rv3594	-0.535	0.433
delta_Rv3717	-0.672	0.371
delta_Rv3811	-0.167	-0.284
delta_Rv0954	-0.388	0.366
PonA1	0.21	0.669
EccD1_KO	0.763	0.043
EspI_KO	0.513	0.724
PE35_KO	0.572	0.508
PPE68_KO	1.072	0.557
glycerol2	-1.588	-0.147
lignocerate	-0.125	0.035
oleate	-0.576	0.322
phosphatidylcholine	-0.864	0.265
acetate	-0.721	0.095
glucAc	-0.187	-0.124
Rv0950ko	-1.661	-0.356
Rv1096ko	0.507	0.112
Rv3684ko	0.177	0.121
delta_otsA_trehalose	-0.796	0.34