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 Rv0938/ligD:

update plot	correlation	link to info on gene
Rv3382c/lytB1	(cc=0.4856)	info on Rv3382c/lytB1
Rv2857c/-	(cc=0.4548)	info on Rv2857c/-
Rv3761c/fadE36	(cc=0.4466)	info on Rv3761c/fadE36
Rv2790c/ltp1	(cc=0.4379)	info on Rv2790c/ltp1
Rv0033/acpA	(cc=0.4365)	info on Rv0033/acpA
Rv1355c/moeY	(cc=0.4358)	info on Rv1355c/moeY
Rv1616/-	(cc=0.4324)	info on Rv1616/-
Rv0766c/cyp123	(cc=0.4311)	info on Rv0766c/cyp123
Rv0576/-	(cc=0.4282)	info on Rv0576/-
Rv0972c/fadE12	(cc=0.4149)	info on Rv0972c/fadE12

Correlation of Rv0938/ligD with Rv3382c/lytB1

Normalized LFCs for Rv0938/ligD:
(description and provenance of datasets)

	Rv0938/ligD	Rv3382c/lytB1
Fe_supp_jason_reseq	-0.508	-0.537
low_pH_jason_reseq	0.371	-0.453
NO_jason_reseq	-0.399	-0.129
B6_jason_reseq	-0.731	-0.782
MHCII_jason_reseq	-0.201	-0.265
Isoniazid02	0.944	0.4
Rifampicin4	0.257	-0.027
Ethambutol3	-0.304	0.499
Meropenem3	1.551	1.751
Vancomycin16	0.334	0.501
Rv2680_day32	-0.824	-2.159
H37Rv_KO_MarP	0.248	-0.384
hypoxia_3wks	1.196	0.128
hypoxia_6wks	1.142	-0.47
glycerol	-0.159	0.531
cholesterol	0.081	0.472
AJ	-0.183	0.126
Bibs02	0.433	1.02
Bibs02c	0.0	1.322
BL6	0.795	0.745
BL6a	0.469	1.578
BXD01	0.786	0.16
BXD010	0.048	0.693
BXD011	0.431	1.176
BXD03	0.075	1.089
BXD04	-0.288	0.461
BXD05	0.612	1.409
BXD06	0.452	0.929
BXD07	0.578	0.809
BXD08	0.572	0.705
BXD09	0.531	0.93
CAST	0.169	0.719
CCcont	-0.118	0.315
DS01	0.595	0.291
DS02	0.449	0.507
DS04	0.517	-0.271
DS0c	0.0	0.707
GP01	0.437	-0.347
GP02	0.447	0.885
GP0c	-0.103	-0.012
NOD	0.042	1.061
NZO	-0.283	0.0
PWK	-0.037	0.159
H37Rv_KO_CtpC	0.148	0.595
H37Rv_KO_CtpD	1.265	2.104
H37Rv_KO_Rv1272	-0.027	0.912
H37Rv_KO_SugABC	-0.038	0.798
H37Rv_KO_MbtN	0.196	1.1
Trans05	-0.103	1.041
macrophage_unactivated	0.221	0.17
IL1	0.658	0.089
Rapamycin	0.681	0.798
Tcell	0.922	-0.244
GMCSF	-0.195	0.422
IFNab	-0.541	0.599
IFNg	0.369	0.893
IFNg_GMCSF1	-0.154	-0.632
Rv1432_day32	0.072	-0.155
Rv1565c_day32	0.25	0.785
secA2_input	-0.121	-1.34
delta_Rv3594	0.251	-0.396
delta_Rv3717	-0.42	-1.029
delta_Rv3811	-0.593	-0.442
delta_Rv0954	-0.839	-0.384
PonA1	-0.538	-0.81
EccD1_KO	-0.26	-1.033
EspI_KO	-0.81	-0.394
PE35_KO	0.076	-0.324
PPE68_KO	-0.71	-0.646
glycerol2	0.149	-0.671
lignocerate	-0.313	-0.872
oleate	0.675	0.699
phosphatidylcholine	0.305	-0.581
acetate	-0.655	-0.04
glucAc	-1.034	-1.299
Rv0950ko	0.28	0.54
Rv1096ko	1.306	-0.042
Rv3684ko	0.593	-0.285
delta_otsA_trehalose	-1.24	0.068