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 Rv3829c/-:

update plot	correlation	link to info on gene
Rv3108/-	(cc=0.5668)	info on Rv3108/-
Rv1946c/lppG	(cc=0.545)	info on Rv1946c/lppG
Rv3398c/idsA1	(cc=0.5255)	info on Rv3398c/idsA1
Rv0844c/narL	(cc=0.5092)	info on Rv0844c/narL
Rv2452c/-	(cc=0.5074)	info on Rv2452c/-
Rv2807/-	(cc=0.4958)	info on Rv2807/-
Rv2428/ahpC	(cc=0.4923)	info on Rv2428/ahpC
Rv2070c/cobK	(cc=0.4855)	info on Rv2070c/cobK
Rv3166c/-	(cc=0.4773)	info on Rv3166c/-
Rv1962A/vapB35	(cc=0.4712)	info on Rv1962A/vapB35

Correlation of Rv3829c/- with Rv1962A/vapB35

Normalized LFCs for Rv3829c/-:
(description and provenance of datasets)

	Rv3829c/-	Rv1962A/vapB35
Fe_supp_jason_reseq	-0.511	-2.087
low_pH_jason_reseq	0.555	0.751
NO_jason_reseq	-0.27	-1.016
B6_jason_reseq	-1.185	-1.721
MHCII_jason_reseq	-0.647	-1.617
Isoniazid02	-0.31	2.993
Rifampicin4	-0.523	0.249
Ethambutol3	-0.102	2.526
Meropenem3	0.125	0.248
Vancomycin16	-0.072	0.716
Rv2680_day32	0.917	1.845
H37Rv_KO_MarP	0.27	-0.189
hypoxia_3wks	-0.419	0.116
hypoxia_6wks	-0.737	0.031
glycerol	0.336	0.0
cholesterol	-0.012	0.461
AJ	0.113	-0.126
Bibs02	-0.907	0.032
Bibs02c	-0.161	-1.338
BL6	0.639	1.12
BL6a	0.288	-0.145
BXD01	0.542	1.863
BXD010	0.608	0.637
BXD011	0.34	1.169
BXD03	0.378	1.383
BXD04	0.534	-0.267
BXD05	-0.033	0.594
BXD06	0.398	1.383
BXD07	0.361	0.953
BXD08	0.725	2.545
BXD09	0.225	1.258
CAST	-0.39	-0.706
CCcont	0.446	0.855
DS01	-0.332	1.042
DS02	0.254	-1.32
DS04	-0.547	-0.461
DS0c	0.071	0.255
GP01	0.313	1.804
GP02	0.762	0.565
GP0c	-0.438	1.454
NOD	0.643	1.705
NZO	-0.189	-2.362
PWK	-0.729	-0.51
H37Rv_KO_CtpC	0.282	0.43
H37Rv_KO_CtpD	1.268	2.829
H37Rv_KO_Rv1272	0.713	1.058
H37Rv_KO_SugABC	0.807	0.46
H37Rv_KO_MbtN	0.201	-0.34
Trans05	0.255	2.557
macrophage_unactivated	0.47	0.051
IL1	0.605	-1.109
Rapamycin	0.218	-1.746
Tcell	0.362	1.838
GMCSF	1.117	-0.882
IFNab	0.726	-0.665
IFNg	0.593	-0.259
IFNg_GMCSF1	0.097	0.333
Rv1432_day32	0.387	-0.488
Rv1565c_day32	0.441	-0.177
secA2_input	0.313	-1.324
delta_Rv3594	-0.381	0.575
delta_Rv3717	-0.58	-0.272
delta_Rv3811	0.22	0.458
delta_Rv0954	0.013	-0.293
PonA1	0.149	0.434
EccD1_KO	1.207	2.174
EspI_KO	1.149	1.437
PE35_KO	1.254	2.896
PPE68_KO	1.318	2.377
glycerol2	-0.441	0.113
lignocerate	-0.106	-0.946
oleate	-0.225	1.197
phosphatidylcholine	-0.409	0.203
acetate	-0.447	-0.893
glucAc	-0.338	-1.917
Rv0950ko	-0.347	-0.546
Rv1096ko	0.205	0.377
Rv3684ko	-0.236	-0.593
delta_otsA_trehalose	-0.033	0.654